@saibolla/ada 0.1.2 → 0.1.3
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.
- package/package.json +27 -2
- package/skills/catalog.json +161 -0
package/package.json
CHANGED
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@@ -1,6 +1,6 @@
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{
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"name": "@saibolla/ada",
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"version": "0.1.
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"version": "0.1.3",
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"description": "The AI research agent for the terminal",
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"license": "Apache-2.0",
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"type": "module",
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@@ -59,10 +59,35 @@
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},
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"dependencies": {
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"@ada/alpha-hub": "file:./packages/alpha-hub",
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"@aliou/pi-processes": "^0.6.3",
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"@brain0pia/pi-ultrathink": "^0.7.1",
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"@javimolina/pi-palette": "^0.1.0",
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"@kaiserlich-dev/pi-session-search": "^1.1.1",
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"@mariozechner/pi-ai": "^0.62.0",
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"@mariozechner/pi-coding-agent": "^0.62.0",
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"@sinclair/typebox": "^0.34.48",
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"
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"@tintinweb/pi-tasks": "^0.4.2",
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"@tmustier/pi-ralph-wiggum": "^0.1.6",
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"@walterra/pi-charts": "^0.0.5",
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"dotenv": "^17.3.1",
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"latchkey": "^2.5.4",
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"pi-arxiv": "^0.1.0",
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"pi-brain": "^0.1.7",
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"pi-btw": "^0.2.1",
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"pi-context": "^1.1.2",
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"pi-docparser": "^1.1.1",
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"pi-markdown-preview": "^0.9.5",
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"pi-mcp-adapter": "^2.2.1",
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"pi-mermaid": "^0.3.0",
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"pi-powerpoint": "^1.0.0",
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"pi-repl": "^0.3.0",
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"pi-rewind": "^0.4.1",
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"pi-sandbox": "^0.3.0",
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"pi-schedule-prompt": "^0.1.2",
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"pi-subagents": "^0.11.12",
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"pi-timer": "^0.1.3",
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"pi-web-access": "^0.10.4",
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"pi-zotero": "^0.1.0"
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},
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"devDependencies": {
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"@types/node": "^25.5.0",
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@@ -0,0 +1,161 @@
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{
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"version": 1,
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"description": "Ada skill catalog — categories for 198 scientific skills",
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"categories": {
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"Genomics & Bioinformatics": {
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"description": "Single-cell analysis, gene expression, sequencing, genome databases",
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"skills": [
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"anndata", "arboreto", "biopython", "cellxgene-census", "deeptools",
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"dhdna-profiler", "ena-database", "ensembl-database", "gene-database",
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"geo-database", "gget", "gnomad-database", "gtars", "gtex-database",
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"gwas-database", "lamindb", "phylogenetics", "polars-bio", "pydeseq2",
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"etetoolkit", "pysam", "scanpy", "scikit-bio", "scvelo", "scvi-tools", "tiledbvcf"
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]
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},
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"Drug Discovery & Chemistry": {
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"description": "Cheminformatics, molecular modeling, drug databases, docking",
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"skills": [
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"bindingdb-database", "chembl-database", "datamol", "deepchem",
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"diffdock", "drugbank-database", "glycoengineering", "matchms",
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"medchem", "molfeat", "molecular-dynamics", "pubchem-database",
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"pytdc", "rdkit", "rowan", "torchdrug", "zinc-database"
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]
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},
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"Proteomics & Structural Biology": {
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"description": "Protein structure prediction, databases, sequence analysis",
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"skills": [
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"adaptyv", "alphafold-database", "esm", "interpro-database",
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"pdb-database", "string-database", "uniprot-database"
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]
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},
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"Clinical & Health Sciences": {
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"description": "Clinical trials, patient data, health informatics, FDA databases",
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"skills": [
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"clinical-decision-support", "clinical-reports", "clinicaltrials-database",
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"clinpgx-database", "clinvar-database", "fda-database", "flowio",
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"histolab", "imaging-data-commons", "pathml", "pydicom", "pyhealth",
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"scikit-survival", "treatment-plans"
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]
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},
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"Metabolomics & Biochemistry": {
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"description": "Metabolic pathways, enzyme databases, biochemical analysis",
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"skills": [
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"bioservices", "brenda-database", "cobrapy", "hmdb-database",
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"kegg-database", "metabolomics-workbench-database", "pyopenms",
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"reactome-database"
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]
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},
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"Cancer & Disease Research": {
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"description": "Cancer genomics, disease databases, knowledge graphs",
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"skills": [
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"cbioportal-database", "cosmic-database", "depmap", "monarch-database",
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"opentargets-database", "primekg"
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]
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},
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"Data Science & Machine Learning": {
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"description": "ML frameworks, data processing, statistics, explainability",
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"skills": [
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"aeon", "dask", "eli5", "exploratory-data-analysis", "networkx",
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"polars", "pymoo", "pytorch-lightning", "scikit-learn", "shap",
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"stable-baselines3", "statistical-analysis", "statsmodels",
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"sympy", "timesfm-forecasting", "torch-geometric", "transformers",
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"umap-learn", "vaex", "zarr-python"
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]
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},
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"Finance & Economics": {
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"description": "Market data, economic indicators, financial analysis",
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"skills": [
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"alpha-vantage", "denario", "edgartools", "fred-economic-data",
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"hedgefundmonitor", "market-research-reports", "usfiscaldata"
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]
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},
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"Physics & Quantum Computing": {
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"description": "Quantum circuits, physics simulation, astronomy",
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"skills": [
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"astropy", "cirq", "fluidsim", "pennylane", "pymatgen",
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"qiskit", "qutip", "simpy"
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]
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},
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"Neuroscience": {
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"description": "Neural signal processing, brain imaging, neuropixel analysis",
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"skills": [
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"neurokit2", "neuropixels-analysis"
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]
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},
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"Geospatial & Environmental": {
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"description": "Geographic data, mapping, spatial analysis",
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"skills": [
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"datacommons-client", "geniml", "geomaster", "geopandas"
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]
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},
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"Visualization & Figures": {
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"description": "Charts, plots, scientific figures, infographics",
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"skills": [
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"generate-image", "infographics", "matplotlib", "plotly",
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"scientific-schematics", "scientific-visualization", "seaborn"
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]
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},
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"Documents & Publishing": {
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"description": "PDF, Word, PowerPoint, LaTeX, markdown, slides, posters",
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"skills": [
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"docx", "latex-posters", "markdown-mermaid-writing", "markitdown",
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"paper-2-web", "parse-document", "pdf", "pptx", "pptx-posters",
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"scientific-slides", "scientific-writing", "venue-templates",
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"writing", "xlsx"
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]
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},
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"Research Workflows": {
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"description": "Literature review, peer review, research methods, brainstorming",
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"skills": [
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"alpha-research", "autoresearch", "bgpt-paper-search",
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"citation-management", "consciousness-council", "deep-research",
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"hypothesis-generation", "literature-review", "open-notebook",
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"paper-code-audit", "paper-writing", "peer-review", "pyzotero",
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"replication", "research-grants", "research-lookup",
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"scholar-evaluation", "scientific-brainstorming",
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"scientific-critical-thinking", "scientific-workflows",
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"source-comparison", "what-if-oracle"
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]
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},
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"Databases & Search": {
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"description": "Academic search engines, paper databases, web search",
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"skills": [
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"arxiv-database", "biorxiv-database", "crawl4ai",
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"jaspar-database", "openalex-database", "parallel-web",
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"perplexity-search", "pubmed-database", "semantic-scholar",
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"uspto-database"
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]
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},
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"Lab Automation & Integration": {
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"description": "Lab equipment, LIMS, protocol management, cloud labs",
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"skills": [
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"benchling-integration", "dnanexus-integration",
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"ginkgo-cloud-lab", "iso-13485-certification",
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"labarchive-integration", "latchbio-integration",
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"omero-integration", "opentrons-integration",
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"protocolsio-integration", "pylabrobot"
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]
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},
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"Infrastructure & Compute": {
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"description": "Docker, cloud compute, background jobs, session management",
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"skills": [
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"docker", "get-available-resources", "jobs", "matlab",
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"modal", "modal-compute", "offer-k-dense-web", "preview",
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"pufferlib", "runpod-compute", "session-log", "session-search",
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"setup", "watch"
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]
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},
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"Bayesian & Probabilistic": {
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"description": "Bayesian modeling, probabilistic programming",
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"skills": [
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"hypogenic", "pymc"
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]
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},
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"Reinforcement Learning": {
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"description": "RL frameworks and environments",
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"skills": [
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"pufferlib", "stable-baselines3"
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]
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}
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}
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}
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