opencode-knowledge-work 0.0.0-stage → 0.1.0

This diff represents the content of publicly available package versions that have been released to one of the supported registries. The information contained in this diff is provided for informational purposes only and reflects changes between package versions as they appear in their respective public registries.
Files changed (472) hide show
  1. package/LICENSE +212 -0
  2. package/README.md +124 -2
  3. package/content/bio-research/.mcp.json +48 -0
  4. package/content/bio-research/CONNECTORS.md +23 -0
  5. package/content/bio-research/LICENSE +202 -0
  6. package/content/bio-research/README.md +83 -0
  7. package/content/bio-research/skills/bio-research-instrument-data-to-allotrope/LICENSE.txt +201 -0
  8. package/content/bio-research/skills/bio-research-instrument-data-to-allotrope/SKILL.md +280 -0
  9. package/content/bio-research/skills/bio-research-instrument-data-to-allotrope/references/asm_schema_overview.md +226 -0
  10. package/content/bio-research/skills/bio-research-instrument-data-to-allotrope/references/field_classification_guide.md +503 -0
  11. package/content/bio-research/skills/bio-research-instrument-data-to-allotrope/references/flattening_guide.md +254 -0
  12. package/content/bio-research/skills/bio-research-instrument-data-to-allotrope/references/supported_instruments.md +151 -0
  13. package/content/bio-research/skills/bio-research-instrument-data-to-allotrope/requirements.txt +26 -0
  14. package/content/bio-research/skills/bio-research-instrument-data-to-allotrope/scripts/convert_to_asm.py +543 -0
  15. package/content/bio-research/skills/bio-research-instrument-data-to-allotrope/scripts/export_parser.py +481 -0
  16. package/content/bio-research/skills/bio-research-instrument-data-to-allotrope/scripts/flatten_asm.py +254 -0
  17. package/content/bio-research/skills/bio-research-instrument-data-to-allotrope/scripts/validate_asm.py +1102 -0
  18. package/content/bio-research/skills/bio-research-nextflow-development/LICENSE.txt +201 -0
  19. package/content/bio-research/skills/bio-research-nextflow-development/SKILL.md +290 -0
  20. package/content/bio-research/skills/bio-research-nextflow-development/references/geo-sra-acquisition.md +416 -0
  21. package/content/bio-research/skills/bio-research-nextflow-development/references/installation.md +96 -0
  22. package/content/bio-research/skills/bio-research-nextflow-development/references/pipelines/atacseq.md +138 -0
  23. package/content/bio-research/skills/bio-research-nextflow-development/references/pipelines/rnaseq.md +118 -0
  24. package/content/bio-research/skills/bio-research-nextflow-development/references/pipelines/sarek.md +145 -0
  25. package/content/bio-research/skills/bio-research-nextflow-development/references/troubleshooting.md +137 -0
  26. package/content/bio-research/skills/bio-research-nextflow-development/scripts/check_environment.py +452 -0
  27. package/content/bio-research/skills/bio-research-nextflow-development/scripts/config/genomes.yaml +148 -0
  28. package/content/bio-research/skills/bio-research-nextflow-development/scripts/config/pipelines/atacseq.yaml +187 -0
  29. package/content/bio-research/skills/bio-research-nextflow-development/scripts/config/pipelines/rnaseq.yaml +147 -0
  30. package/content/bio-research/skills/bio-research-nextflow-development/scripts/config/pipelines/sarek.yaml +233 -0
  31. package/content/bio-research/skills/bio-research-nextflow-development/scripts/detect_data_type.py +300 -0
  32. package/content/bio-research/skills/bio-research-nextflow-development/scripts/generate_samplesheet.py +455 -0
  33. package/content/bio-research/skills/bio-research-nextflow-development/scripts/manage_genomes.py +521 -0
  34. package/content/bio-research/skills/bio-research-nextflow-development/scripts/sra_geo_fetch.py +732 -0
  35. package/content/bio-research/skills/bio-research-nextflow-development/scripts/utils/__init__.py +69 -0
  36. package/content/bio-research/skills/bio-research-nextflow-development/scripts/utils/file_discovery.py +189 -0
  37. package/content/bio-research/skills/bio-research-nextflow-development/scripts/utils/ncbi_utils.py +808 -0
  38. package/content/bio-research/skills/bio-research-nextflow-development/scripts/utils/sample_inference.py +290 -0
  39. package/content/bio-research/skills/bio-research-nextflow-development/scripts/utils/validators.py +256 -0
  40. package/content/bio-research/skills/bio-research-scientific-problem-selection/LICENSE.txt +201 -0
  41. package/content/bio-research/skills/bio-research-scientific-problem-selection/SKILL.md +269 -0
  42. package/content/bio-research/skills/bio-research-scientific-problem-selection/references/01-intuition-pumps.md +264 -0
  43. package/content/bio-research/skills/bio-research-scientific-problem-selection/references/02-risk-assessment.md +323 -0
  44. package/content/bio-research/skills/bio-research-scientific-problem-selection/references/03-optimization-function.md +481 -0
  45. package/content/bio-research/skills/bio-research-scientific-problem-selection/references/04-parameter-strategy.md +396 -0
  46. package/content/bio-research/skills/bio-research-scientific-problem-selection/references/05-decision-tree.md +85 -0
  47. package/content/bio-research/skills/bio-research-scientific-problem-selection/references/06-adversity-planning.md +123 -0
  48. package/content/bio-research/skills/bio-research-scientific-problem-selection/references/07-problem-inversion.md +152 -0
  49. package/content/bio-research/skills/bio-research-scientific-problem-selection/references/08-integration-synthesis.md +173 -0
  50. package/content/bio-research/skills/bio-research-scientific-problem-selection/references/09-meta-framework.md +504 -0
  51. package/content/bio-research/skills/bio-research-scvi-tools/LICENSE.txt +201 -0
  52. package/content/bio-research/skills/bio-research-scvi-tools/SKILL.md +155 -0
  53. package/content/bio-research/skills/bio-research-scvi-tools/references/atac_peakvi.md +398 -0
  54. package/content/bio-research/skills/bio-research-scvi-tools/references/batch_correction_sysvi.md +417 -0
  55. package/content/bio-research/skills/bio-research-scvi-tools/references/citeseq_totalvi.md +420 -0
  56. package/content/bio-research/skills/bio-research-scvi-tools/references/data_preparation.md +286 -0
  57. package/content/bio-research/skills/bio-research-scvi-tools/references/environment_setup.md +254 -0
  58. package/content/bio-research/skills/bio-research-scvi-tools/references/label_transfer.md +373 -0
  59. package/content/bio-research/skills/bio-research-scvi-tools/references/multiome_multivi.md +384 -0
  60. package/content/bio-research/skills/bio-research-scvi-tools/references/rna_velocity_velovi.md +410 -0
  61. package/content/bio-research/skills/bio-research-scvi-tools/references/scarches_mapping.md +401 -0
  62. package/content/bio-research/skills/bio-research-scvi-tools/references/scrna_integration.md +429 -0
  63. package/content/bio-research/skills/bio-research-scvi-tools/references/spatial_deconvolution.md +438 -0
  64. package/content/bio-research/skills/bio-research-scvi-tools/references/troubleshooting.md +420 -0
  65. package/content/bio-research/skills/bio-research-scvi-tools/scripts/cluster_embed.py +212 -0
  66. package/content/bio-research/skills/bio-research-scvi-tools/scripts/differential_expression.py +220 -0
  67. package/content/bio-research/skills/bio-research-scvi-tools/scripts/integrate_datasets.py +237 -0
  68. package/content/bio-research/skills/bio-research-scvi-tools/scripts/model_utils.py +634 -0
  69. package/content/bio-research/skills/bio-research-scvi-tools/scripts/prepare_data.py +169 -0
  70. package/content/bio-research/skills/bio-research-scvi-tools/scripts/train_model.py +370 -0
  71. package/content/bio-research/skills/bio-research-scvi-tools/scripts/transfer_labels.py +224 -0
  72. package/content/bio-research/skills/bio-research-scvi-tools/scripts/validate_adata.py +397 -0
  73. package/content/bio-research/skills/bio-research-single-cell-rna-qc/LICENSE.txt +201 -0
  74. package/content/bio-research/skills/bio-research-single-cell-rna-qc/SKILL.md +175 -0
  75. package/content/bio-research/skills/bio-research-single-cell-rna-qc/references/scverse_qc_guidelines.md +186 -0
  76. package/content/bio-research/skills/bio-research-single-cell-rna-qc/scripts/qc_analysis.py +232 -0
  77. package/content/bio-research/skills/bio-research-single-cell-rna-qc/scripts/qc_core.py +233 -0
  78. package/content/bio-research/skills/bio-research-single-cell-rna-qc/scripts/qc_plotting.py +235 -0
  79. package/content/bio-research/skills/bio-research-start/SKILL.md +79 -0
  80. package/content/customer-support/.mcp.json +40 -0
  81. package/content/customer-support/CONNECTORS.md +19 -0
  82. package/content/customer-support/LICENSE +202 -0
  83. package/content/customer-support/README.md +140 -0
  84. package/content/customer-support/skills/customer-support-customer-escalation/SKILL.md +248 -0
  85. package/content/customer-support/skills/customer-support-customer-research/SKILL.md +252 -0
  86. package/content/customer-support/skills/customer-support-draft-response/SKILL.md +418 -0
  87. package/content/customer-support/skills/customer-support-kb-article/SKILL.md +351 -0
  88. package/content/customer-support/skills/customer-support-ticket-triage/SKILL.md +275 -0
  89. package/content/data/.mcp.json +36 -0
  90. package/content/data/CONNECTORS.md +18 -0
  91. package/content/data/LICENSE +202 -0
  92. package/content/data/README.md +121 -0
  93. package/content/data/skills/data-analyze/SKILL.md +119 -0
  94. package/content/data/skills/data-build-dashboard/SKILL.md +924 -0
  95. package/content/data/skills/data-create-viz/SKILL.md +154 -0
  96. package/content/data/skills/data-data-context-extractor/SKILL.md +227 -0
  97. package/content/data/skills/data-data-context-extractor/references/domain-template.md +147 -0
  98. package/content/data/skills/data-data-context-extractor/references/example-output.md +198 -0
  99. package/content/data/skills/data-data-context-extractor/references/skill-template.md +148 -0
  100. package/content/data/skills/data-data-context-extractor/references/sql-dialects.md +121 -0
  101. package/content/data/skills/data-data-context-extractor/scripts/package_data_skill.py +126 -0
  102. package/content/data/skills/data-data-visualization/SKILL.md +305 -0
  103. package/content/data/skills/data-explore-data/SKILL.md +325 -0
  104. package/content/data/skills/data-sql-queries/SKILL.md +428 -0
  105. package/content/data/skills/data-statistical-analysis/SKILL.md +245 -0
  106. package/content/data/skills/data-validate-data/SKILL.md +383 -0
  107. package/content/data/skills/data-write-query/SKILL.md +122 -0
  108. package/content/design/.mcp.json +44 -0
  109. package/content/design/CONNECTORS.md +18 -0
  110. package/content/design/README.md +117 -0
  111. package/content/design/skills/design-accessibility-review/SKILL.md +128 -0
  112. package/content/design/skills/design-design-critique/SKILL.md +118 -0
  113. package/content/design/skills/design-design-handoff/SKILL.md +131 -0
  114. package/content/design/skills/design-design-system/SKILL.md +190 -0
  115. package/content/design/skills/design-research-synthesis/SKILL.md +92 -0
  116. package/content/design/skills/design-user-research/SKILL.md +41 -0
  117. package/content/design/skills/design-ux-copy/SKILL.md +107 -0
  118. package/content/engineering/.mcp.json +48 -0
  119. package/content/engineering/CONNECTORS.md +19 -0
  120. package/content/engineering/README.md +136 -0
  121. package/content/engineering/skills/engineering-architecture/SKILL.md +85 -0
  122. package/content/engineering/skills/engineering-code-review/SKILL.md +118 -0
  123. package/content/engineering/skills/engineering-debug/SKILL.md +95 -0
  124. package/content/engineering/skills/engineering-deploy-checklist/SKILL.md +78 -0
  125. package/content/engineering/skills/engineering-documentation/SKILL.md +49 -0
  126. package/content/engineering/skills/engineering-incident-response/SKILL.md +158 -0
  127. package/content/engineering/skills/engineering-standup/SKILL.md +75 -0
  128. package/content/engineering/skills/engineering-system-design/SKILL.md +42 -0
  129. package/content/engineering/skills/engineering-tech-debt/SKILL.md +32 -0
  130. package/content/engineering/skills/engineering-testing-strategy/SKILL.md +33 -0
  131. package/content/enterprise-search/.mcp.json +36 -0
  132. package/content/enterprise-search/CONNECTORS.md +21 -0
  133. package/content/enterprise-search/LICENSE +202 -0
  134. package/content/enterprise-search/README.md +157 -0
  135. package/content/enterprise-search/skills/enterprise-search-digest/SKILL.md +173 -0
  136. package/content/enterprise-search/skills/enterprise-search-knowledge-synthesis/SKILL.md +258 -0
  137. package/content/enterprise-search/skills/enterprise-search-search/SKILL.md +178 -0
  138. package/content/enterprise-search/skills/enterprise-search-search-strategy/SKILL.md +222 -0
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  140. package/content/finance/.mcp.json +32 -0
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  143. package/content/finance/README.md +92 -0
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  147. package/content/finance/skills/finance-journal-entry/SKILL.md +131 -0
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  150. package/content/finance/skills/finance-sox-testing/SKILL.md +218 -0
  151. package/content/finance/skills/finance-variance-analysis/SKILL.md +266 -0
  152. package/content/human-resources/.mcp.json +28 -0
  153. package/content/human-resources/CONNECTORS.md +19 -0
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  159. package/content/human-resources/skills/human-resources-org-planning/SKILL.md +28 -0
  160. package/content/human-resources/skills/human-resources-people-report/SKILL.md +99 -0
  161. package/content/human-resources/skills/human-resources-performance-review/SKILL.md +149 -0
  162. package/content/human-resources/skills/human-resources-policy-lookup/SKILL.md +94 -0
  163. package/content/human-resources/skills/human-resources-recruiting-pipeline/SKILL.md +31 -0
  164. package/content/legal/.mcp.json +36 -0
  165. package/content/legal/CONNECTORS.md +21 -0
  166. package/content/legal/LICENSE +202 -0
  167. package/content/legal/README.md +234 -0
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  169. package/content/legal/skills/legal-compliance-check/SKILL.md +274 -0
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  471. package/index.ts +84 -0
  472. package/package.json +30 -3
@@ -0,0 +1,267 @@
1
+ # Connector Query Guide
2
+
3
+ How to pull the right data from each connector for each mode. Ledgers are peers
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+ (`../../../shared/connector-neutrality.md`): use whichever is connected. Both modes are
5
+ US federal tax; the country check in the skill's Step 0 runs before any of this.
6
+
7
+ ---
8
+
9
+ ## Xero — Quarterly mode (P&L)
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+
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+ `get_profit_and_loss` for January 1 through the last day of the most recently completed
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+ quarter. Capture the same three figures as the QuickBooks path: total income, total
13
+ expenses, net profit.
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+
15
+ Read `get_organisation_info` first if the business context has no Country or Currency:
16
+ it returns both, plus the base currency the P&L is in. `get_organisation_financial_year`
17
+ returns the year end; a US organisation on a calendar year is the case this path was
18
+ built for, and a non-calendar year end changes which months "YTD" covers — resolve the
19
+ dates once and say which basis the estimate is on.
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+
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+ **Confirm each tool name in this section before the first live run.**
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+
23
+ ---
24
+
25
+ ## Xero — Year-end mode (contractor payments)
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+
27
+ Two reads, in this order:
28
+
29
+ 1. **`get_1099_report_summary`** — for a US organisation, Xero already computes the
30
+ 1099 view: payees, totals for the year, and the contact's tax-ID status. This is the
31
+ expected output of Path 2 in one call. Use it as the candidate list and skip to the
32
+ W-9 check.
33
+ 2. **`get_bills`** with `include_line_items=true`, status `PAID`, grouped by
34
+ `contact.name` — when the summary is unavailable, or to cross-check it. **Attribute
35
+ each bill to the year it was paid, not the year it was dated:** 1099 totals are by
36
+ payment date, so a bill dated in December and paid in January belongs to the later
37
+ year. Read the payment date from the bill's payments (or `fully_paid_on_date` where
38
+ the connector exposes it), pull bills from both calendar years around the boundary,
39
+ and sum per contact by payment year. Exclude bills coded to goods, refunds, and
40
+ transfers.
41
+
42
+ For each contact, capture: name, tax ID present or not (the W-9 signal), total paid,
43
+ payment dates. Xero's contact record holds a tax number field; empty means no W-9 on
44
+ file.
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+
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+ Worked example, shape only:
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+
48
+ ```
49
+ Xero 1099 summary, tax year 2025:
50
+ Rivera Design Co USD 14,200 tax ID on file
51
+ M. Okafor USD 2,850 no tax ID — collect W-9
52
+ Northgate Electrical USD 580 under threshold — near-threshold list
53
+ ```
54
+
55
+ Same aggregation, threshold, and W-9 logic as every other source from here.
56
+
57
+ ---
58
+
59
+ ## QuickBooks — Quarterly mode (P&L)
60
+
61
+ Pull a **Profit & Loss** report for the period January 1 through the last day of the most recently completed quarter.
62
+
63
+ Key fields to capture:
64
+ - `Total Income` (gross revenue)
65
+ - `Total Expenses` (all operating expenses)
66
+ - `Net Ordinary Income` (= income − expenses; this is the basis for tax calculation)
67
+
68
+ If QuickBooks returns multiple income/expense categories, sum them. You want the single
69
+ bottom-line net profit figure.
70
+
71
+ **If the user's QuickBooks is on cash basis**, use that. If accrual, note it in output —
72
+ the accountant should confirm which basis to use for estimated taxes.
73
+
74
+ ---
75
+
76
+ ## QuickBooks — Year-end mode (contractor payments)
77
+
78
+ Pull all **bill payments and checks** to vendors for the full tax year (Jan 1 – Dec 31).
79
+
80
+ Filter for:
81
+ - Vendor type = "1099 eligible" (if the user has tagged vendors in QuickBooks)
82
+ - OR any vendor whose category is: consulting, contract labor, subcontractor, freelance, design, legal, accounting, marketing, staffing
83
+
84
+ For each vendor record, capture:
85
+ - Vendor name (legal name if available)
86
+ - EIN / SSN (from vendor profile — indicates W-9 on file)
87
+ - Total payments for the year
88
+ - Payment dates and amounts (for cross-reference)
89
+ - Vendor type / 1099 eligibility flag
90
+
91
+ **Common issue:** Many QuickBooks users do not tag vendors as 1099-eligible. If
92
+ `1099 eligible` returns few or no results, pull ALL vendors with significant payment
93
+ totals and let the user / accountant classify them. Note this in output.
94
+
95
+ ### When the connector returns totals with no payee breakdown
96
+
97
+ Try the live connector first, then fall back. Three steps:
98
+
99
+ 1. **Try the live connector.** Attempt to pull vendor-level payment records via the
100
+ QuickBooks MCP. If it returns individual payee records with name, amount, and account
101
+ category, use them directly and skip the rest of this section.
102
+
103
+ 2. **Detect an aggregate-only response.** If the response carries only category-level
104
+ totals — "Contract labor: USD 7,500" with no payee breakdown — the connector does not
105
+ support vendor-level queries on this account. Ask for an export:
106
+
107
+ > "QuickBooks returned summary data only — I need payee-level detail to build your 1099
108
+ > list. Please export a **Transaction List by Vendor** report (QuickBooks → Reports →
109
+ > Expenses → Transaction List by Vendor, filtered to this tax year) and upload the CSV
110
+ > here. I'll process it automatically."
111
+
112
+ 3. **Process the CSV.** Map columns: payee name, amount, date, payment method, and
113
+ EIN/SSN status. From there the aggregation and threshold logic is identical regardless
114
+ of which source the data came from.
115
+
116
+ If the QuickBooks MCP later exposes vendor payment records directly, step 1 simply
117
+ succeeds and the fallback is skipped. No skill change is needed — the try-first order
118
+ handles it.
119
+
120
+ ---
121
+
122
+ ## PayPal — Year-end mode
123
+
124
+ Pull all **"Goods & Services" payments sent** (not received) for the tax year.
125
+
126
+ Key fields:
127
+ - Recipient name / email
128
+ - Total amount per recipient (aggregate for the year)
129
+ - Transaction type = "Payment" or "Business Payment"
130
+ - Date
131
+
132
+ **Exclude:** personal payments ("Friends & Family"), refunds, disputes, transfers
133
+ to own accounts.
134
+
135
+ **1099-K note:** PayPal issues its own 1099-K to any recipient who receives ≥ USD 600
136
+ in goods & services payments. Flag this in output — the accountant determines whether
137
+ the business must also issue a 1099-NEC or can rely on PayPal's 1099-K.
138
+
139
+ ---
140
+
141
+ ## Stripe — Year-end mode
142
+
143
+ Pull all **transfers to external accounts** (payouts to contractors, not payouts to the
144
+ business owner's own bank).
145
+
146
+ Key fields:
147
+ - Recipient name / ID
148
+ - Total transferred per recipient for the year
149
+ - Payment description / metadata (to confirm these are for services)
150
+
151
+ **Exclude:** Stripe payouts to the business's own bank account.
152
+
153
+ **1099-K note:** Same as PayPal — Stripe issues 1099-K to contractors above the
154
+ threshold. Flag and defer to accountant.
155
+
156
+ ---
157
+
158
+ ## Square — both modes
159
+
160
+ Square is a peer of PayPal and Stripe in the payments category, and it holds less of what
161
+ this skill needs. Say what it cannot do, in one line, and move on.
162
+
163
+ **Quarterly mode:** the P&L comes from the ledger, not from Square. Square's payments
164
+ list (all locations — `ListPayments` without `location_id` returns only the main one)
165
+ gives gross card receipts for the period, useful only as a cross-check that the ledger's
166
+ income line is not missing a location. Never substitute it for the P&L.
167
+
168
+ **Year-end mode:** Square exposes no payments *to* external parties through the
169
+ connector — its payouts go to the business's own bank, and contractor pay lives in Square
170
+ Payroll, which the connector does not reach. Square contributes nothing to the 1099-NEC
171
+ list. Say so by name in the Sources section rather than leaving it out silently.
172
+
173
+ **1099-K note:** like PayPal and Stripe, Square issues a 1099-K to the *business* for
174
+ card receipts above the threshold. That is the business's own income reporting, not a
175
+ contractor's; note it for the accountant so gross receipts on the return reconcile to the
176
+ processors.
177
+
178
+ ---
179
+
180
+ ## Ramp — both modes
181
+
182
+ Card transactions with GL and category coding, vendor bills with their approval history,
183
+ vendor records, and reimbursements.
184
+
185
+ - **Quarterly mode:** card spend by category, for the expense side of the estimate. Anything not yet synced to the ledger is spend the P&L does not know about — name it as an adjustment rather than folding it in silently.
186
+ - **Year-end mode:** vendor and bill records help confirm a payee list built from the ledger. Ramp is a cross-check, not the source of truth.
187
+
188
+ Ramp can approve bills and mark them ready to sync. **Nothing in this skill writes.** Read only.
189
+
190
+ ---
191
+
192
+ ## Expensify — both modes
193
+
194
+ **Read-only search.** Expense reports, individual expenses, receipts, invoices, trips,
195
+ category-grouped totals, and approval-state statuses.
196
+
197
+ - **Quarterly mode:** category-grouped expense totals, for the deduction side.
198
+ - **Receipt substantiation is a first-class filter.** Search for expenses with no receipt attached and report the total and the count. That is the line the accountant acts on: an expense without a receipt is a deduction that may not hold.
199
+ - Expensify does not carry contractor payee detail suitable for a 1099 list. Do not build one from it.
200
+
201
+ ---
202
+
203
+ ## NetSuite — both modes
204
+
205
+ P&L via `ns_runReport` for the quarterly path; vendor bill payments by payee via
206
+ `ns_runCustomSuiteQL` for the year-end path. Same fields as the QuickBooks path. NetSuite
207
+ vendor records carry the tax-ID field that stands in for the W-9 signal.
208
+
209
+ ---
210
+
211
+ ## MYOB — quarterly mode only
212
+
213
+ **Read-only, and P&L-side only.** MYOB gives net profit with monthly or quarterly breakdown
214
+ and a prior-year comparison — which is exactly the input the quarterly estimate needs.
215
+
216
+ What it cannot do:
217
+
218
+ - **No contractor or payee detail.** MYOB has no role in 1099 prep. Say so and fall back to PayPal, Stripe, or a CSV for the payee list.
219
+ - **No bank balances.**
220
+ - **Three financial years only** — the current and prior two. Anything older is unavailable.
221
+
222
+ Resolve the business financial-year dates once before pulling the P&L and reuse them. Any
223
+ "last quarter" or "FYTD" reference means the financial year, not the calendar year, unless
224
+ the owner says otherwise — and if the financial year is not the calendar year, say which
225
+ basis the estimate is on, because the accountant needs that stated.
226
+
227
+ ---
228
+
229
+ ## Zoho Books — both modes
230
+
231
+ No report endpoints, so both modes are assembled from document lists and labelled
232
+ as such.
233
+
234
+ **Quarterly mode.** `list_invoices` for January 1 through the quarter end with
235
+ `response_option=3` (summed `total`), and `list_expenses` for the same range
236
+ summed on `total`. Income minus expenses is the net figure for the estimate —
237
+ **an invoiced-and-recorded estimate, not a P&L.** Say that in the output; the
238
+ accountant confirms basis. `get_organization` supplies `country_code`,
239
+ `currency_code`, and `fiscal_year_start_month` for the Step 0 country check
240
+ and the YTD dates.
241
+
242
+ **Year-end mode.** `list_contacts` with `contact_type=vendor`, reading
243
+ `track_1099` (Zoho's own 1099-eligible flag) and `tax_id_type` / tax ID
244
+ presence as the W-9 signal. Then `list_expenses` per `vendor_id` for the tax
245
+ year, summed on `total` by payment year.
246
+
247
+ **What it cannot do:** there is no bill object and no vendor-payment list, so
248
+ only expenses count toward each payee's total. A vendor paid through bills in
249
+ Zoho Books is invisible here — say so, and ask for the **Payments Made** or
250
+ **Vendor Balances** export from Reports for the payee list when the business
251
+ uses bills.
252
+
253
+ ---
254
+
255
+ ## Desktop / CSV fallback
256
+
257
+ If any connector is unavailable, ask the user to:
258
+ 1. Export a P&L from their ledger as CSV (QuickBooks: Reports → Profit & Loss → Export; Xero: Reports → Profit and Loss → Export; Zoho Books: Reports → Profit and Loss → Export; and for the year-end path, Xero's 1099 report or a Payable Invoice Summary by contact, or Zoho Books' Payments Made report by vendor)
259
+ 2. Export a transaction history from PayPal (Activity → Download → CSV)
260
+ 3. Export a payout report from Stripe (Dashboard → Payouts → Export)
261
+
262
+ When reading uploaded CSVs, look for these columns (names vary by export):
263
+ - P&L: `Description`, `Amount`, `Type` (Income / Expense)
264
+ - PayPal: `Name`, `Type`, `Amount`, `Date`, `Transaction ID`
265
+ - Stripe: `Description`, `Amount`, `Created date`, `Status`
266
+
267
+ If columns don't match, ask the user to identify the payee name and amount columns.
@@ -0,0 +1,92 @@
1
+ # Worked Example: Quarterly Estimated Tax
2
+
3
+ **Scenario:** Sarah runs a freelance graphic design business as a sole proprietor.
4
+ She asks: "How much should I pay in estimated taxes for Q2?"
5
+
6
+ ---
7
+
8
+ ## Step 1: Pull YTD P&L from QuickBooks
9
+
10
+ QuickBooks P&L — January 1 through March 31, 2025:
11
+ - Gross income: USD 48,000
12
+ - Operating expenses: USD 12,500 (software, equipment, marketing)
13
+ - Net ordinary income: **USD 35,500**
14
+
15
+ ---
16
+
17
+ ## Step 2: Ask about prior payments
18
+
19
+ > "Have you made any estimated tax payments so far this year?"
20
+
21
+ Sarah: "I paid USD 2,000 in April for Q1."
22
+
23
+ ---
24
+
25
+ ## Step 3: Calculate
26
+
27
+ ```
28
+ YTD net profit (Q1): USD 35,500
29
+ Annualized net profit: USD 35,500 × 4 = USD 142,000 ← rough annualization
30
+
31
+ Self-employment tax:
32
+ SE base: USD 142,000 × 92.35% = USD 131,137
33
+ SE tax: USD 131,137 × 15.3% = USD 20,064
34
+ (Soc. Sec. cap at USD 176,100 — not hit, full rate applies)
35
+ Deductible half: = USD 10,032
36
+
37
+ Federal income tax:
38
+ Adjusted net: USD 142,000 − USD 10,032 = USD 131,968
39
+ Bracket: 22% (estimated; actual may vary with household income)
40
+ Federal tax: USD 131,968 × 22% = USD 29,033
41
+
42
+ Total estimated annual liability:
43
+ SE tax + federal = USD 20,064 + USD 29,033 = USD 49,097
44
+
45
+ Quarterly breakdown:
46
+ Annual liability: USD 49,097
47
+ Payments made (Q1): −USD 2,000
48
+ Remaining: USD 47,097 ÷ 3 remaining quarters = USD 15,699 per quarter
49
+ Q2 payment due June 16: ~USD 15,700
50
+ ```
51
+
52
+ ---
53
+
54
+ ## Step 4: Output delivered to Sarah
55
+
56
+ ```
57
+ ## Estimated tax summary — Q2 2025
58
+ Prepared April 24, 2025 · For review by your accountant · Not tax advice
59
+
60
+ **YTD net profit (Jan 1 – Mar 31):** USD 35,500
61
+ **Estimated annual net profit:** USD 142,000 (annualized from Q1 actual)
62
+ **Business type assumed:** Sole proprietor (confirm with accountant)
63
+
64
+ ### Self-employment tax
65
+ USD 142,000 × 92.35% × 15.3% = USD 20,064
66
+ Deductible SE half: USD 10,032
67
+
68
+ ### Federal income tax estimate
69
+ Adjusted net income: USD 131,968
70
+ Assumed bracket: 22% (confirm with accountant — household income affects this)
71
+ Federal income tax estimate: USD 29,033
72
+
73
+ ### Total estimated annual liability
74
+ USD 20,064 + USD 29,033 = **USD 49,097**
75
+
76
+ ### Q2 payment
77
+ Annual liability: USD 49,097
78
+ Less Q1 payment made: −USD 2,000
79
+ Remaining: USD 47,097 ÷ 3 quarters = **~USD 15,700 due by June 16, 2025**
80
+
81
+ ### Safe harbor note
82
+ To avoid underpayment penalty: ensure total 2025 payments ≥ 100% of your 2024
83
+ tax (or 110% if 2024 AGI > USD 150,000). Ask your accountant for that figure.
84
+
85
+ ### Assumptions — review with your accountant
86
+ - Federal bracket: 22% (effective rate may differ)
87
+ - Business structure: sole proprietor (assumed)
88
+ - Annualization: Q1 × 4 — income may be seasonal
89
+ - State taxes: not included
90
+ - QBI deduction (up to 20%): not applied — could reduce federal tax significantly
91
+ - Retirement contributions, home office, vehicle: not applied
92
+ ```
@@ -0,0 +1,102 @@
1
+ # Worked Example: Year-End 1099 Prep
2
+
3
+ **Scenario:** Marcus owns a digital marketing agency. He asks: "I need to send out
4
+ my 1099s — can you pull together a list of who needs one?"
5
+
6
+ ---
7
+
8
+ ## Step 1: Pull contractor payments from all sources
9
+
10
+ **QuickBooks** (Jan 1 – Dec 31, 2024):
11
+
12
+ | Vendor | Total paid | 1099 eligible? | EIN/SSN on file? |
13
+ |--------|-----------|----------------|-----------------|
14
+ | Jenna Torres (copywriter) | USD 8,400 | Yes | Yes |
15
+ | Apex Web Solutions | USD 15,200 | Yes | Yes |
16
+ | Bob Nguyen | USD 550 | No | No |
17
+ | FedEx | USD 320 | No | No |
18
+ | Spark Digital Inc. | USD 6,000 | Yes | Yes |
19
+
20
+ **PayPal** (goods & services payments sent, 2024):
21
+
22
+ | Recipient | Total sent | Notes |
23
+ |-----------|-----------|-------|
24
+ | jenna.torres@email.com | USD 1,200 | Likely same as QuickBooks vendor |
25
+ | designbymike@gmail.com | USD 2,100 | Not in QuickBooks |
26
+ | Bob Nguyen | USD 480 | |
27
+
28
+ **Stripe** (not connected — skipped)
29
+
30
+ ---
31
+
32
+ ## Step 2: Aggregate and deduplicate
33
+
34
+ Cross-referencing QuickBooks and PayPal:
35
+
36
+ | Payee | QuickBooks | PayPal | Total | Notes |
37
+ |-------|-----------|--------|-------|-------|
38
+ | Jenna Torres | USD 8,400 | USD 1,200 | **USD 9,600** | Same person — email match |
39
+ | Apex Web Solutions | USD 15,200 | — | **USD 15,200** | |
40
+ | Spark Digital Inc. | USD 6,000 | — | **USD 6,000** | |
41
+ | Northwind Design (owner unknown) | — | USD 2,100 | **USD 2,100** | Not in QuickBooks; payee name unknown |
42
+ | Bob Nguyen | USD 550 | USD 480 | **USD 1,030** | Combined > USD 600; flagged |
43
+ | FedEx | USD 320 | — | USD 320 | Below threshold; goods/shipping — exempt |
44
+
45
+ ---
46
+
47
+ ## Step 3: Apply USD 600 threshold and W-9 check
48
+
49
+ - Jenna Torres: USD 9,600 ✅ → **1099-NEC required** · W-9 on file (EIN recorded in QB)
50
+ - Apex Web Solutions: USD 15,200 ✅ → **1099-NEC candidate** · W-9 on file · Note: may be a corp (confirm)
51
+ - Spark Digital Inc.: USD 6,000 ✅ → **1099-NEC candidate** · W-9 on file · "Inc." — likely corp exempt (confirm)
52
+ - Northwind Design: USD 2,100 ✅ → **1099-NEC required** · W-9 not on file — must collect
53
+ - Bob Nguyen: USD 1,030 ✅ → **1099-NEC required** · W-9 not on file — must collect
54
+ - FedEx: USD 320 → below threshold; goods/shipping — not required
55
+
56
+ ---
57
+
58
+ ## Step 4: Output delivered to Marcus
59
+
60
+ ```
61
+ ## 1099 prep list — 2024
62
+ Prepared January 10, 2025 · For review by your accountant · Not tax advice
63
+
64
+ ### Summary
65
+ - Contractors paying: 5 candidates identified
66
+ - Require 1099-NEC (≥USD 600 for services): 5
67
+ - Missing W-9: 2 — action required before January 31
68
+ - Corporation exemption review needed: 2 (Apex, Spark)
69
+ - PayPal overlap: 2 contractors (Jenna Torres, Northwind Design) — see note below
70
+
71
+ ### 1099-NEC candidates
72
+
73
+ | Payee | Total paid | Source(s) | W-9 status | Notes |
74
+ |-------|-----------|-----------|------------|-------|
75
+ | Jenna Torres | USD 9,600 | QB + PayPal | ✅ EIN on file | PayPal also paid USD 1,200 — confirm 1099-K handling |
76
+ | Apex Web Solutions | USD 15,200 | QuickBooks | ✅ EIN on file | "Solutions" — may be corp; confirm exemption with accountant |
77
+ | Spark Digital Inc. | USD 6,000 | QuickBooks | ✅ EIN on file | "Inc." — likely corp-exempt; confirm with accountant |
78
+ | Northwind Design | USD 2,100 | PayPal only | ⚠️ Missing W-9 | Full name unknown — obtain before filing |
79
+ | Bob Nguyen | USD 1,030 | QB + PayPal | ⚠️ Missing W-9 | Combined QB (USD 550) + PayPal (USD 480) = USD 1,030 |
80
+
81
+ ### Missing W-9 action list
82
+ These contractors must provide a W-9 before you can file:
83
+
84
+ 1. **Northwind Design** — paid USD 2,100 via PayPal. Obtain full legal name and W-9.
85
+ IRS W-9 form: https://www.irs.gov/pub/irs-pdf/fw9.pdf
86
+ 2. **Bob Nguyen** — paid USD 1,030 (QB + PayPal). W-9 not on file for either source.
87
+
88
+ ### Payment processor note (PayPal)
89
+ Jenna Torres and Northwind Design received payments via PayPal. PayPal issues its own
90
+ 1099-K to contractors receiving ≥USD 600 in goods & services payments. Your accountant
91
+ should confirm whether you still need to issue a 1099-NEC for these two, or whether
92
+ PayPal's 1099-K covers the reporting obligation.
93
+
94
+ ### Next steps for your accountant
95
+ - [ ] Collect W-9 from Northwind Design (full legal name needed first)
96
+ - [ ] Collect W-9 from Bob Nguyen
97
+ - [ ] Confirm corporation exemption for Apex Web Solutions
98
+ - [ ] Confirm corporation exemption for Spark Digital Inc.
99
+ - [ ] Confirm 1099-K overlap handling for Jenna Torres and Northwind Design (PayPal)
100
+ - [ ] File 1099-NECs by January 31, 2025
101
+ - [ ] File 1096 transmittal with IRS by January 31, 2025
102
+ ```
@@ -0,0 +1,104 @@
1
+ # Good / Bad Patterns
2
+
3
+ Common failure modes and how to avoid them.
4
+
5
+ ---
6
+
7
+ ## Calculations
8
+
9
+ **BAD:** Apply 22% to gross revenue.
10
+ ```
11
+ Gross revenue: USD 120,000
12
+ Tax estimate: USD 120,000 × 22% = USD 26,400 ← wildly wrong
13
+ ```
14
+
15
+ **GOOD:** Apply bracket rate to net profit AFTER SE tax deduction.
16
+ ```
17
+ Gross revenue: USD 120,000
18
+ Expenses: USD 45,000
19
+ Net profit: USD 75,000
20
+ SE tax: USD 75,000 × 92.35% × 15.3% = USD 10,628
21
+ Deductible ½: USD 5,314
22
+ Adjusted net: USD 75,000 − USD 5,314 = USD 69,686
23
+ Fed. tax est.: USD 69,686 × 22% = USD 15,331
24
+ Total: USD 10,628 + USD 15,331 = USD 25,959
25
+ ```
26
+
27
+ ---
28
+
29
+ ## Assumptions
30
+
31
+ **BAD:** State a dollar figure without any context.
32
+ > "Your Q2 estimated payment is USD 6,500."
33
+
34
+ **GOOD:** State the figure with the assumptions table.
35
+ > "Based on 22% federal bracket, sole proprietor structure, and no prior-year
36
+ > safe harbor data: **Q2 payment ≈ USD 6,500**. State taxes not included.
37
+ > QBI deduction not applied. Review with your accountant."
38
+
39
+ ---
40
+
41
+ ## 1099 threshold
42
+
43
+ **BAD:** Only flag vendors with a QuickBooks "1099 eligible" tag.
44
+ Many QuickBooks users never set this flag. Silently missing contractors is worse
45
+ than over-flagging.
46
+
47
+ **GOOD:** Pull ALL vendors with ≥ USD 600 in payments, then note which ones are
48
+ 1099-eligible per QuickBooks and which are flagged by category heuristics.
49
+ Let the accountant make the final call.
50
+
51
+ ---
52
+
53
+ ## Payee deduplication
54
+
55
+ **BAD:** Auto-merge "Bob Smith" and "Robert Smith Design LLC" because they sound similar.
56
+ These could be different people or the same person's sole-prop vs. LLC.
57
+
58
+ **GOOD:** Flag likely duplicates for human review.
59
+ > "These look like they may be the same person — confirm before filing:
60
+ > Bob Smith (USD 1,200) | Robert Smith Design (USD 800) — combined would be USD 2,000"
61
+
62
+ ---
63
+
64
+ ## PayPal / Stripe 1099-K overlap
65
+
66
+ **BAD:** Instruct the user to file 1099-NECs for all contractors paid via PayPal.
67
+
68
+ **GOOD:** Flag the overlap and defer to the accountant.
69
+ > "Contractors paid via PayPal or Stripe may already receive a 1099-K from those
70
+ > platforms. Your accountant should confirm whether you also need to issue a
71
+ > 1099-NEC — double-reporting is an issue some accountants handle differently."
72
+
73
+ ---
74
+
75
+ ## Corporation exemption
76
+
77
+ **BAD:** Automatically exclude "Smith Consulting Inc." from the 1099 list because it
78
+ has "Inc." in the name.
79
+
80
+ **GOOD:** Flag it for the accountant with a note.
81
+ > "Smith Consulting Inc. — USD 4,500. Corporations are generally exempt from 1099-NEC
82
+ > requirements, but confirm with your accountant (S-corps and some professional corps
83
+ > are exceptions)."
84
+
85
+ ---
86
+
87
+ ## Tax advice boundary
88
+
89
+ **BAD:** "You should use a SEP-IRA to reduce your tax bill."
90
+
91
+ **GOOD:** "Your accountant may recommend a SEP-IRA or Solo 401(k) contribution to
92
+ reduce taxable income — these can significantly change the estimate above."
93
+
94
+ The skill surfaces options; the accountant advises.
95
+
96
+ ---
97
+
98
+ ## S-corp owners
99
+
100
+ **BAD:** Apply SE tax to an S-corp owner's full income.
101
+
102
+ **GOOD:** Note that SE tax applies only to W-2 wages for S-corp shareholders, not to
103
+ K-1 distributions — and ask the user to confirm their business structure before
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+ running calculations. If unsure, default to sole prop math and note the assumption.
@@ -0,0 +1,68 @@
1
+ # Output Formats
2
+
3
+ The document structure for each of the two paths. Both open with the not-tax-advice line
4
+ in the header itself, not just in chat.
5
+
6
+ ---
7
+
8
+ ## Path 1 — Quarterly estimated tax summary
9
+
10
+ Sections in this order:
11
+
12
+ 1. **Header** — H2 reading "Estimated tax summary", the quarter, and the **tax year**.
13
+ Subline: prepared date, the year the rate tables came from, and "For review by your
14
+ accountant."
15
+
16
+ 2. **YTD snapshot** — Bold lines showing YTD net profit with its date range, estimated
17
+ annual net profit annualized from YTD, and the assumed business type (sole proprietor,
18
+ S-corp, and so on). Flag the business type as assumed, not confirmed.
19
+
20
+ 3. **Self-employment tax** — The SE tax calculation on **annualized** net profit: times
21
+ 92.35%, times 15.3%, and the deductible SE half.
22
+
23
+ 4. **Federal income tax estimate** — Adjusted net income, the assumed bracket (default 22%,
24
+ with a note to confirm with the accountant), and the federal estimate.
25
+
26
+ 5. **Total estimated annual liability** — SE tax plus federal income tax.
27
+
28
+ 6. **Quarterly payment** — Total liability minus payments already made, divided by the
29
+ quarters still ahead, with the dollar amount due and the due date. Any missed quarter
30
+ gets its own catch-up line, separate from the next payment.
31
+
32
+ 7. **Safe harbor note** — Remind the owner to ensure total payments meet 100% of
33
+ prior-year tax, or 110% if AGI exceeded USD 150k.
34
+
35
+ 8. **Assumptions** — Bullet every assumption: bracket rate, business structure, state
36
+ taxes excluded, deductible SE half included, and deductions not applied (home office,
37
+ QBI, depreciation).
38
+
39
+ ---
40
+
41
+ ## Path 2 — 1099 prep package
42
+
43
+ Sections in this order:
44
+
45
+ 1. **Header** — H2 reading "1099 prep list" and the tax year. Subline: prepared date,
46
+ "For review by your accountant," and "Not tax advice."
47
+
48
+ 2. **Summary** — Bullet counts: total contractors paid, number requiring a 1099-NEC (at or
49
+ above USD 600 for services), number missing a W-9 with the January 31 filing deadline
50
+ noted, and number near-threshold flagged for review.
51
+
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+ 3. **1099-NEC candidates table** — Columns: payee name, total paid, data sources, W-9
53
+ status (on file, missing, unknown), and notes. Flag any payee paid via PayPal or Stripe
54
+ with a note that the platform may issue its own 1099-K.
55
+
56
+ 4. **Missing W-9 action list** — Numbered list of contractors who need to provide a W-9
57
+ before filing, with amounts paid and a reminder to request the form.
58
+
59
+ 5. **Near-threshold table** — Payees paid USD 400 to USD 599, flagged for accountant review,
60
+ with a note to verify no additional payments were missed.
61
+
62
+ 6. **Payment processor note** — Explain that PayPal and Stripe issue their own 1099-K
63
+ forms, and the accountant should confirm whether a 1099-NEC is also needed for
64
+ contractors paid exclusively through those platforms.
65
+
66
+ 7. **Next steps checklist** — Action items for the accountant: collect missing W-9s,
67
+ confirm unknowns, review near-threshold payees, verify corporation exemptions, confirm
68
+ 1099-K overlap handling, and file by January 31.