@sjcrh/proteinpaint-server 2.146.4-0 → 2.146.4-1
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/dataset/termdb.test.js +24 -2
- package/package.json +4 -4
- package/src/app.js +5 -5
package/dataset/termdb.test.js
CHANGED
|
@@ -253,7 +253,26 @@ function termdb_test_default() {
|
|
|
253
253
|
snvindel: {
|
|
254
254
|
forTrack: true,
|
|
255
255
|
byrange: {
|
|
256
|
-
bcffile: "files/hg38/TermdbTest/TermdbTest.bcf.gz"
|
|
256
|
+
bcffile: "files/hg38/TermdbTest/TermdbTest.bcf.gz",
|
|
257
|
+
infoFields: [
|
|
258
|
+
{
|
|
259
|
+
name: "Clinical Significance",
|
|
260
|
+
key: "CLNSIG",
|
|
261
|
+
categories: {
|
|
262
|
+
Pathogenic: {
|
|
263
|
+
color: "#f04124",
|
|
264
|
+
label: "Pathogenic",
|
|
265
|
+
desc: "The variant is reported to be pathogenic."
|
|
266
|
+
},
|
|
267
|
+
LP: {
|
|
268
|
+
color: "#f024ce",
|
|
269
|
+
label: "Likely Pathogenic",
|
|
270
|
+
desc: "The variant is reported to be LP."
|
|
271
|
+
}
|
|
272
|
+
},
|
|
273
|
+
separator: "|"
|
|
274
|
+
}
|
|
275
|
+
]
|
|
257
276
|
},
|
|
258
277
|
skewerRim: {
|
|
259
278
|
type: "format",
|
|
@@ -268,7 +287,10 @@ function termdb_test_default() {
|
|
|
268
287
|
}
|
|
269
288
|
},
|
|
270
289
|
cnv: {
|
|
271
|
-
file: "files/hg38/TermdbTest/TermdbTest_CNV_gene.gz"
|
|
290
|
+
file: "files/hg38/TermdbTest/TermdbTest_CNV_gene.gz",
|
|
291
|
+
cnvMaxLength: 2e7,
|
|
292
|
+
cnvGainCutoff: 0.1,
|
|
293
|
+
cnvLossCutoff: -0.1
|
|
272
294
|
},
|
|
273
295
|
singleSampleMutation: {
|
|
274
296
|
src: "native",
|
package/package.json
CHANGED
|
@@ -1,6 +1,6 @@
|
|
|
1
1
|
{
|
|
2
2
|
"name": "@sjcrh/proteinpaint-server",
|
|
3
|
-
"version": "2.146.4-
|
|
3
|
+
"version": "2.146.4-1",
|
|
4
4
|
"type": "module",
|
|
5
5
|
"description": "a genomics visualization tool for exploring a cohort's genotype and phenotype data",
|
|
6
6
|
"main": "src/app.js",
|
|
@@ -63,9 +63,9 @@
|
|
|
63
63
|
"@sjcrh/augen": "2.143.0",
|
|
64
64
|
"@sjcrh/proteinpaint-python": "2.146.0",
|
|
65
65
|
"@sjcrh/proteinpaint-r": "2.146.4-0",
|
|
66
|
-
"@sjcrh/proteinpaint-rust": "2.146.4-
|
|
67
|
-
"@sjcrh/proteinpaint-shared": "2.146.4-
|
|
68
|
-
"@sjcrh/proteinpaint-types": "2.146.
|
|
66
|
+
"@sjcrh/proteinpaint-rust": "2.146.4-1",
|
|
67
|
+
"@sjcrh/proteinpaint-shared": "2.146.4-1",
|
|
68
|
+
"@sjcrh/proteinpaint-types": "2.146.4-1",
|
|
69
69
|
"@types/express": "^5.0.0",
|
|
70
70
|
"@types/express-session": "^1.18.1",
|
|
71
71
|
"better-sqlite3": "^9.4.1",
|