@sjcrh/proteinpaint-shared 2.98.0 → 2.99.0

package/package.json

@@ -1,6 +1,6 @@
 {
   "name": "@sjcrh/proteinpaint-shared",
-  "version": "2.98.0",
+  "version": "2.99.0",
   "description": "ProteinPaint code that is shared between server and client-side workspaces",
   "type": "module",
   "main": "src/index.js",

package/src/common.js

@@ -307,7 +307,7 @@ mclass[mclasscnvloss] = {
 export const mclasscnvAmp = 'CNV_amplification'
 mclass[mclasscnvAmp] = {
 	label: 'Copy number amplification',
-	color: '#900000',
+	color: '#ff0000',
 	dt: dtcnv,
 	desc: 'Copy number amplification',
 	key: mclasscnvAmp
@@ -316,7 +316,7 @@ mclass[mclasscnvAmp] = {
 export const mclasscnvHomozygousDel = 'CNV_homozygous_deletion'
 mclass[mclasscnvHomozygousDel] = {
 	label: 'Copy number homozygous deletion',
-	color: '#00457C',
+	color: '#0000ff',
 	dt: dtcnv,
 	desc: 'Copy number homozygous deletion',
 	key: mclasscnvHomozygousDel

package/src/termdb.usecase.js

@@ -181,6 +181,18 @@ export function isUsableTerm(term, _usecase, termdbConfig, ds) {
 			}
 		// no specific rule for filter. pass and use default rules
 
+		case 'correlationVolcano':
+			if (usecase.detail == 'numeric') {
+				if (isNumericTerm(term)) {
+					uses.add('plot')
+				}
+				if (hasNumericChild(child_types)) uses.add('branch')
+			} else {
+				if (graphableTypes.has(term.type)) uses.add('plot')
+				if (!term.isleaf) uses.add('branch')
+			}
+			return uses
+
 		default:
 			if (graphableTypes.has(term.type)) uses.add('plot')
 			if (!term.isleaf) uses.add('branch')

package/src/terms.js

@@ -184,3 +184,25 @@ export function getParentType(types, ds) {
 	}
 	return null //no parent found
 }
+
+//Returns human readable type (nice label) for the given type
+export function getReadableType(type) {
+	const typeMap = {
+		categorical: 'Categorical',
+		condition: 'Condition',
+		float: 'Numeric',
+		integer: 'Numeric',
+		geneExpression: 'Gene Expression',
+		geneVariant: 'Gene Variant',
+		metaboliteIntensity: 'Metabolite Intensity',
+		multiValue: 'Multi Value',
+		samplelst: 'Sample List',
+		singleCellGeneExpression: 'Single Cell, Gene Expression',
+		singleCellCellType: 'Single Cell, Cell Type',
+		snplocus: 'SNP Locus',
+		snp: 'SNP',
+		snplst: 'SNP List'
+	}
+
+	return typeMap[type] || 'Unknown type [shared/utils/src/terms.js getReadableType()]'
+}