@jbrowse/plugin-spreadsheet-view 2.6.1 → 2.6.3

package/src/SpreadsheetView/test_data/starfusion_example.fusion_predictions.tsv

@@ -1,25 +0,0 @@
-#FusionName	JunctionReadCount	SpanningFragCount	SpliceType	LeftGene	LeftBreakpoint	RightGene	RightBreakpoint	LargeAnchorSupport	FFPM	LeftBreakDinuc	LeftBreakEntropy	RightBreakDinuc	RightBreakEntropy	annots
-THRA--AC090627.1	27	93	ONLY_REF_SPLICE	THRA^ENSG00000126351.8	chr17:38243106:+	AC090627.1^ENSG00000235300.3	chr17:46371709:+	YES_LDAS	23875.8456	GT	1.8892	AG	1.9656	["CCLE","FA_CancerSupp","INTRACHROMOSOMAL[chr17:8.12Mb]"]
-THRA--AC090627.1	5	93	ONLY_REF_SPLICE	THRA^ENSG00000126351.8	chr17:38243106:+	AC090627.1^ENSG00000235300.3	chr17:46384693:+	YES_LDAS	19498.6072	GT	1.8892	AG	1.4295	["CCLE","FA_CancerSupp","INTRACHROMOSOMAL[chr17:8.12Mb]"]
-ACACA--STAC2	12	52	ONLY_REF_SPLICE	ACACA^ENSG00000132142.15	chr17:35479453:-	STAC2^ENSG00000141750.6	chr17:37374426:-	YES_LDAS	12733.7844	GT	1.9656	AG	1.9656	["ChimerSeq","CCLE","Klijn_CellLines","FA_CancerSupp","INTRACHROMOSOMAL[chr17:1.60Mb]"]
-RPS6KB1--SNF8	10	43	ONLY_REF_SPLICE	RPS6KB1^ENSG00000108443.9	chr17:57970686:+	SNF8^ENSG00000159210.5	chr17:47021337:-	YES_LDAS	10545.1651	GT	1.3753	AG	1.8323	["Klijn_CellLines","FA_CancerSupp","ChimerSeq","CCLE","INTRACHROMOSOMAL[chr17:10.95Mb]"]
-TOB1--SYNRG	8	30	ONLY_REF_SPLICE	TOB1^ENSG00000141232.4	chr17:48943419:-	SYNRG^ENSG00000006114.11	chr17:35880751:-	YES_LDAS	7560.6844	GT	1.4566	AG	1.8892	["FA_CancerSupp","CCLE","INTRACHROMOSOMAL[chr17:12.97Mb]"]
-VAPB--IKZF3	4	46	ONLY_REF_SPLICE	VAPB^ENSG00000124164.11	chr20:56964573:+	IKZF3^ENSG00000161405.12	chr17:37934020:-	YES_LDAS	9948.269	GT	1.9656	AG	1.7819	["FA_CancerSupp","Klijn_CellLines","CCLE","ChimerSeq","ChimerPub","INTERCHROMOSOMAL[chr20--chr17]"]
-ZMYND8--CEP250	2	44	ONLY_REF_SPLICE	ZMYND8^ENSG00000101040.15	chr20:45852970:-	CEP250^ENSG00000126001.11	chr20:34078463:+	NO_LDAS	9152.4075	GT	1.8295	AG	1.8062	["FA_CancerSupp","CCLE","ChimerSeq","INTRACHROMOSOMAL[chr20:11.74Mb]"]
-AHCTF1--NAAA	3	38	ONLY_REF_SPLICE	AHCTF1^ENSG00000153207.10	chr1:247094880:-	NAAA^ENSG00000138744.10	chr4:76846964:-	YES_LDAS	8157.5805	GT	1.7232	AG	1.8062	["FA_CancerSupp","CCLE","INTERCHROMOSOMAL[chr1--chr4]"]
-VAPB--IKZF3	1	46	ONLY_REF_SPLICE	VAPB^ENSG00000124164.11	chr20:56964573:+	IKZF3^ENSG00000161405.12	chr17:37922746:-	NO_LDAS	9351.3729	GT	1.9656	AG	1.9329	["FA_CancerSupp","Klijn_CellLines","CCLE","ChimerSeq","ChimerPub","INTERCHROMOSOMAL[chr20--chr17]"]
-VAPB--IKZF3	1	46	ONLY_REF_SPLICE	VAPB^ENSG00000124164.11	chr20:56964573:+	IKZF3^ENSG00000161405.12	chr17:37944627:-	NO_LDAS	9351.3729	GT	1.9656	AG	1.8892	["FA_CancerSupp","Klijn_CellLines","CCLE","ChimerSeq","ChimerPub","INTERCHROMOSOMAL[chr20--chr17]"]
-STX16--RAE1	4	33	ONLY_REF_SPLICE	STX16^ENSG00000124222.17	chr20:57227143:+	RAE1^ENSG00000101146.8	chr20:55929088:+	YES_LDAS	7361.719	GT	1.9899	AG	1.9656	["FA_CancerSupp","CCLE","INTRACHROMOSOMAL[chr20:1.27Mb]"]
-AHCTF1--NAAA	1	38	ONLY_REF_SPLICE	AHCTF1^ENSG00000153207.10	chr1:247094431:-	NAAA^ENSG00000138744.10	chr4:76846964:-	NO_LDAS	7759.6498	GT	1.9086	AG	1.8062	["FA_CancerSupp","CCLE","INTERCHROMOSOMAL[chr1--chr4]"]
-STX16-NPEPL1--RAE1	4	24	INCL_NON_REF_SPLICE	STX16-NPEPL1^ENSG00000254995.4	chr20:57227143:+	RAE1^ENSG00000101146.8	chr20:55929088:+	YES_LDAS	5571.0306	GT	1.9899	AG	1.9656	INTRACHROMOSOMAL[chr20:1.27Mb]
-RAB22A--MYO9B	6	11	ONLY_REF_SPLICE	RAB22A^ENSG00000124209.3	chr20:56886178:+	MYO9B^ENSG00000099331.9	chr19:17256207:+	YES_LDAS	3382.4115	GT	1.6895	AG	1.9656	["FA_CancerSupp","ChimerSeq","CCLE","INTERCHROMOSOMAL[chr20--chr19]"]
-MED1--ACSF2	4	11	ONLY_REF_SPLICE	MED1^ENSG00000125686.7	chr17:37595418:-	ACSF2^ENSG00000167107.8	chr17:48548389:+	YES_LDAS	2984.4807	GT	1.9656	AG	1.9656	["FA_CancerSupp","CCLE","INTRACHROMOSOMAL[chr17:10.90Mb]"]
-MED13--BCAS3	2	12	ONLY_REF_SPLICE	MED13^ENSG00000108510.5	chr17:60129898:-	BCAS3^ENSG00000141376.16	chr17:59469338:+	YES_LDAS	2785.5154	GT	1.5546	AG	1.9086	["FA_CancerSupp","CCLE","INTRACHROMOSOMAL[chr17:0.55Mb]"]
-MED1--STXBP4	1	15	ONLY_REF_SPLICE	MED1^ENSG00000125686.7	chr17:37607291:-	STXBP4^ENSG00000166263.9	chr17:53218671:+	NO_LDAS	3183.4461	GT	1.3996	AG	1.7968	["CCLE","FA_CancerSupp","Klijn_CellLines","INTRACHROMOSOMAL[chr17:15.44Mb]"]
-MED13--BCAS3	1	12	ONLY_REF_SPLICE	MED13^ENSG00000108510.5	chr17:60129898:-	BCAS3^ENSG00000141376.16	chr17:59465979:+	NO_LDAS	2586.55	GT	1.5546	AG	0.8366	["FA_CancerSupp","CCLE","INTRACHROMOSOMAL[chr17:0.55Mb]"]
-STARD3--DOK5	2	7	ONLY_REF_SPLICE	STARD3^ENSG00000131748.11	chr17:37793484:+	DOK5^ENSG00000101134.7	chr20:53259997:+	NO_LDAS	1790.6885	GT	1.8892	AG	1.9656	["FA_CancerSupp","CCLE","INTERCHROMOSOMAL[chr17--chr20]"]
-DIDO1--TTI1	1	10	ONLY_REF_SPLICE	DIDO1^ENSG00000101191.12	chr20:61569148:-	TTI1^ENSG00000101407.8	chr20:36642259:-	NO_LDAS	2188.6192	GT	1.6402	AG	1.9329	["FA_CancerSupp","ChimerSeq","CCLE","INTRACHROMOSOMAL[chr20:24.85Mb]"]
-DIDO1--TTI1	1	10	ONLY_REF_SPLICE	DIDO1^ENSG00000101191.12	chr20:61569148:-	TTI1^ENSG00000101407.8	chr20:36634799:-	NO_LDAS	2188.6192	GT	1.6402	AG	1.8892	["FA_CancerSupp","ChimerSeq","CCLE","INTRACHROMOSOMAL[chr20:24.85Mb]"]
-BRD4--RFX1	1	8	ONLY_REF_SPLICE	BRD4^ENSG00000141867.13	chr19:15443101:-	RFX1^ENSG00000132005.4	chr19:14109129:-	NO_LDAS	1790.6884	GT	1.9086	AG	1.8892	["CCLE","FA_CancerSupp","INTRACHROMOSOMAL[chr19:1.23Mb]"]
-BRD4--RFX1	1	8	ONLY_REF_SPLICE	BRD4^ENSG00000141867.13	chr19:15443101:-	RFX1^ENSG00000132005.4	chr19:14094407:-	NO_LDAS	1790.6884	GT	1.9086	AG	1.8295	["CCLE","FA_CancerSupp","INTRACHROMOSOMAL[chr19:1.23Mb]"]
-TRPC4AP--MRPL45	1	8	ONLY_REF_SPLICE	TRPC4AP^ENSG00000100991.7	chr20:33665849:-	MRPL45^ENSG00000174100.5	chr17:36478009:+	NO_LDAS	1790.6884	GT	1.6895	AG	1.9086	["CCLE","Klijn_CellLines","FA_CancerSupp","INTERCHROMOSOMAL[chr20--chr17]"]

package/src/SpreadsheetView/test_data/volvox.sort.bed

@@ -1,109 +0,0 @@
-contigA	3000	3009
-contigA	3105	3114
-contigA	3152	3161
-contigA	3171	3180
-contigA	3174	3183
-contigA	3213	3222
-contigA	3465	3474
-contigA	3795	3804
-contigA	4035	4044
-contigA	4073	4082
-contigA	4074	4083
-contigA	4166	4175
-contigA	4179	4188
-contigA	4204	4213
-contigA	4248	4257
-contigA	4260	4269
-contigA	4577	4586
-contigA	4828	4837
-contigA	4901	4910
-contigA	5006	5015
-contigA	5051	5060
-contigA	5201	5210
-contigA	5260	5269
-contigA	5281	5290
-contigA	5349	5358
-contigA	5353	5362
-contigA	5423	5432
-contigA	5457	5466
-contigA	5548	5557
-contigA	5626	5635
-contigA	5835	5844
-contigA	5909	5918
-contigA	5927	5936
-contigA	5969	5978
-contigA	6070	6079
-contigA	6185	6194
-contigA	6285	6294
-contigA	6363	6372
-contigA	6559	6568
-contigA	6834	6843
-contigA	6908	6917
-contigA	6918	6927
-contigA	7141	7150
-contigA	7173	7182
-contigA	7569	7578
-contigA	7619	7628
-contigA	7654	7663
-contigA	7671	7680
-contigA	7707	7716
-contigA	7739	7748
-contigA	8077	8086
-contigA	8128	8137
-contigA	8132	8141
-contigA	8210	8219
-contigA	8267	8276
-contigA	8328	8337
-contigA	8524	8533
-contigA	8659	8668
-contigA	8660	8669
-contigA	8742	8751
-contigA	8811	8820
-contigA	8816	8825
-contigA	8964	8973
-contigA	9048	9057
-contigA	9054	9063
-contigA	9136	9145
-contigA	9243	9252
-contigA	9320	9329
-contigA	9366	9375
-contigA	9525	9534
-contigA	9580	9589
-contigA	9610	9619
-contigA	9744	9753
-contigA	9753	9762
-contigA	9759	9768
-contigA	9807	9816
-contigA	9853	9862
-contigA	9884	9893
-contigA	9920	9929
-contigA	10043	10052
-contigA	10216	10225
-contigA	10217	10226
-contigA	10252	10261
-contigA	10384	10393
-contigA	10498	10507
-contigA	10585	10594
-contigA	10684	10693
-contigA	10781	10790
-contigA	10875	10884
-contigA	11004	11013
-contigA	11095	11104
-contigA	11182	11191
-contigA	11207	11216
-contigA	11241	11250
-contigA	11335	11344
-contigA	11340	11349
-contigA	11535	11544
-contigA	11543	11552
-contigA	11549	11558
-contigA	11653	11662
-contigA	11675	11684
-contigA	11689	11698
-contigA	11774	11783
-contigA	11832	11841
-contigA	12386	12395
-contigA	12408	12417
-contigA	12441	12450
-contigA	12530	12539
-contigA	12738	12747

package/src/index.ts

@@ -1,38 +0,0 @@
-import PluginManager from '@jbrowse/core/PluginManager'
-import Plugin from '@jbrowse/core/Plugin'
-import { AbstractSessionModel, isAbstractMenuManager } from '@jbrowse/core/util'
-
-// icons
-import ViewComfyIcon from '@mui/icons-material/ViewComfy'
-
-// locals
-import SpreadsheetViewF from './SpreadsheetView'
-
-import LaunchSpreadsheetViewF from './LaunchSpreadsheetView'
-
-export default class SpreadsheetViewPlugin extends Plugin {
-  name = 'SpreadsheetViewPlugin'
-
-  install(pluginManager: PluginManager) {
-    SpreadsheetViewF(pluginManager)
-    LaunchSpreadsheetViewF(pluginManager)
-  }
-
-  configure(pluginManager: PluginManager) {
-    const { rootModel } = pluginManager
-    if (isAbstractMenuManager(rootModel)) {
-      rootModel.appendToSubMenu(['Add'], {
-        label: 'Spreadsheet view',
-        icon: ViewComfyIcon,
-        onClick: (session: AbstractSessionModel) => {
-          session.addView('SpreadsheetView', {})
-        },
-      })
-    }
-  }
-}
-
-export {
-  type SpreadsheetViewModel,
-  type SpreadsheetViewStateModel,
-} from './SpreadsheetView'