@sjcrh/proteinpaint-types 2.140.1-2 → 2.141.0

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Files changed (43) hide show
  1. package/dist/brainImaging.js +1 -1
  2. package/dist/{chunk-Y6Z6XAFN.js → chunk-424IUJWR.js} +532 -154
  3. package/dist/{chunk-NHELOLDH.js → chunk-56JQGGZJ.js} +4103 -2234
  4. package/dist/{chunk-5BKOSJEU.js → chunk-77RH7U6G.js} +2101 -981
  5. package/dist/{chunk-F2ZZ5J3F.js → chunk-EOBFYFLQ.js} +2483 -1911
  6. package/dist/{chunk-34LXTZYA.js → chunk-I7FTK55B.js} +2162 -1590
  7. package/dist/{chunk-4S36DRJ4.js → chunk-KEJROUTM.js} +1314 -572
  8. package/dist/{chunk-ZHCVV36H.js → chunk-QWAPDNYB.js} +2486 -1914
  9. package/dist/{chunk-HJ7XFSJK.js → chunk-S6OBK4RE.js} +528 -150
  10. package/dist/{chunk-P3Z422N2.js → chunk-T3GTEGQN.js} +532 -154
  11. package/dist/{chunk-2QKCLUH3.js → chunk-UYBVE3DL.js} +2478 -1906
  12. package/dist/{chunk-KDHGWAOS.js → chunk-VMQUAU5V.js} +2481 -1909
  13. package/dist/{chunk-G5BYLEJC.js → chunk-WCWYMCZD.js} +532 -154
  14. package/dist/correlationVolcano.js +1 -1
  15. package/dist/index.js +12 -12
  16. package/dist/termdb.boxplot.js +1 -1
  17. package/dist/termdb.categories.js +1 -1
  18. package/dist/termdb.cluster.js +1 -1
  19. package/dist/termdb.descrstats.js +1 -1
  20. package/dist/termdb.numericcategories.js +1 -1
  21. package/dist/termdb.percentile.js +1 -1
  22. package/dist/termdb.termsbyids.js +1 -1
  23. package/dist/termdb.topTermsByType.js +1 -1
  24. package/dist/termdb.topVariablyExpressedGenes.js +1 -1
  25. package/dist/termdb.violin.js +1 -1
  26. package/package.json +1 -2
  27. package/src/dataset.ts +14 -4
  28. package/src/genome.ts +2 -2
  29. package/src/index.ts +1 -0
  30. package/src/routes/termdb.cluster.ts +6 -6
  31. package/src/terms/categorical.ts +0 -8
  32. package/src/terms/condition.ts +4 -3
  33. package/src/terms/date.ts +18 -0
  34. package/src/terms/geneExpression.ts +7 -21
  35. package/src/terms/geneVariant.ts +3 -0
  36. package/src/terms/metaboliteIntensity.ts +7 -20
  37. package/src/terms/numeric.ts +17 -38
  38. package/src/terms/singleCellGeneExpression.ts +3 -4
  39. package/src/terms/snp.ts +7 -7
  40. package/src/terms/snps.ts +1 -0
  41. package/src/terms/ssGSEA.ts +7 -13
  42. package/src/terms/tw.ts +11 -6
  43. package/src/terms/updated-types.ts +0 -10
package/src/terms/ssGSEA.ts CHANGED
@@ -1,6 +1,4 @@
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- import type { TermWrapper } from './tw.ts'
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- import type { NumericTerm, NumericQ } from './numeric.ts'
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- import type { TermSettingInstance } from '../termsetting.ts'
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+ import type { NumericBaseTerm, NumericQ, PresetNumericBins, NumTWTypes } from './numeric.ts'
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  /*
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  duplicated from geneExpression.ts
@@ -8,19 +6,15 @@ duplicated from geneExpression.ts
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  export type SsGSEAQ = NumericQ & { dt?: number }
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- export type SsGSEATW = TermWrapper & {
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- q: SsGSEAQ
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- term: SsGSEATerm
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- }
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-
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- export type SsGSEATerm = NumericTerm & {
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+ export type SsGSEATerm = NumericBaseTerm & {
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  /** term.id: geneset db term id for native term, and cache file name for custom term */
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  /** term.name: geneset db term name for native term, and user-defined name for custom term */
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  /** custom term has list of gene names used for computing score */
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  genes?: string[]
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+ name?: string
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+ type: 'ssGSEA'
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+ bins?: PresetNumericBins
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+ unit?: string
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  }
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- export type SsGSEATermSettingInstance = TermSettingInstance & {
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- q: SsGSEAQ
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- term: SsGSEATerm
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- }
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+ export type SsGSEATW = NumTWTypes & { term: SsGSEATerm }
package/src/terms/tw.ts CHANGED
@@ -1,14 +1,19 @@
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- import type { BaseQ, BaseTW, Term } from './term.ts'
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- import type { CategoricalQ, CategoricalTW } from './categorical.ts'
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- import type { NumericQ, NumericTW } from './numeric.ts'
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  import type { SnpsQ, SnpsTW } from './snps.ts'
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- import type { ConditionQ } from './condition.ts'
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+ import type { SnpQ, SnpTW } from './snp.ts'
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+ import type { ConditionQ, ConditionTW } from './condition.ts'
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  import type { SampleLstQ } from './samplelst.ts'
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+ import type { CatTWTypes, CategoricalQ } from './categorical.ts'
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+ import type { NumTWTypes, NumericQ } from './numeric.ts'
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+ import type { GvTW, GvQ } from './geneVariant.ts'
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- export type TermWrapper = CategoricalTW | NumericTW | SnpsTW | (BaseTW & { term: Term; q: Q })
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+ export type TermWrapper = CatTWTypes | NumTWTypes | GvTW | ConditionTW | SnpsTW | SnpTW
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+
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+ export type Q = CategoricalQ | NumericQ | GvQ | ConditionQ | SnpsQ | SnpQ | SampleLstQ // | other q
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+
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+ //export type TermWrapper = CategoricalTW | NumericTW | SnpsTW | (BaseTW & { term: Term; q: Q })
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  export type TwLst = TermWrapper[]
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- export type Q = BaseQ | CategoricalQ | ConditionQ | NumericQ | SampleLstQ | SnpsQ
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+ //export type Q = BaseQ | CategoricalQ | ConditionQ | NumericQ | SampleLstQ | SnpsQ
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  export type RawTW =
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  //{ id: string } | RawCatTW
package/src/terms/updated-types.ts DELETED
@@ -1,10 +0,0 @@
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- // temporary code file to hold updated type definitions
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- // as part of the tw router/handler refactor
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-
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- import type { CatTWTypes, CategoricalQ } from './categorical.ts'
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- import type { NumTWTypes, NumericQ } from './numeric.ts'
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- import type { GvTW, GvQ } from './geneVariant.ts'
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-
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- export type TermWrapper = CatTWTypes | NumTWTypes | GvTW
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-
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- export type Q = CategoricalQ | NumericQ | GvQ // | other q