@teselagen/sequence-utils 0.3.23 → 0.3.25

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Files changed (43) hide show
  1. package/calculateNebTm.d.ts +3 -2
  2. package/calculateTm.d.ts +7 -1
  3. package/degenerateDnaToAminoAcidMap.d.ts +1 -1
  4. package/degenerateRnaToAminoAcidMap.d.ts +1 -1
  5. package/getAminoAcidDataForEachBaseOfDna.d.ts +13 -3
  6. package/{index.mjs → index.cjs} +2760 -6271
  7. package/index.d.ts +76 -81
  8. package/index.js +2729 -6240
  9. package/{index.umd.js → index.umd.cjs} +2639 -6150
  10. package/insertSequenceDataAtPosition.d.ts +1 -1
  11. package/package.json +1 -1
  12. package/src/addGapsToSeqReads.js +1 -1
  13. package/src/adjustAnnotationsToInsert.js +1 -1
  14. package/src/autoAnnotate.js +1 -1
  15. package/src/calculateNebTm.js +1 -2
  16. package/src/calculateNebTm.test.js +17 -7
  17. package/src/calculateTm.js +54 -17
  18. package/src/calculateTm.test.js +7 -1
  19. package/src/computeDigestFragments.js +1 -1
  20. package/src/cutSequenceByRestrictionEnzyme.js +1 -1
  21. package/src/degenerateDnaToAminoAcidMap.js +1 -1
  22. package/src/degenerateRnaToAminoAcidMap.js +1 -1
  23. package/src/deleteSequenceDataAtRange.test.js +1 -1
  24. package/src/diffUtils.js +1 -1
  25. package/src/diffUtils.test.js +1 -1
  26. package/src/featureTypesAndColors.js +1 -1
  27. package/src/filterSequenceString.js +1 -1
  28. package/src/findSequenceMatches.js +1 -1
  29. package/src/generateSequenceData.test.js +1 -1
  30. package/src/getAminoAcidDataForEachBaseOfDna.js +246 -115
  31. package/src/getAminoAcidDataForEachBaseOfDna.test.js +55 -0
  32. package/src/getComplementSequenceString.js +1 -1
  33. package/src/getDigestFragmentsForRestrictionEnzymes.js +1 -1
  34. package/src/getReverseComplementSequenceAndAnnotations.js +1 -1
  35. package/src/getSequenceDataBetweenRange.js +1 -1
  36. package/src/getVirtualDigest.js +1 -1
  37. package/src/insertSequenceDataAtPositionOrRange.js +1 -1
  38. package/src/insertSequenceDataAtPositionOrRange.test.js +22 -0
  39. package/src/mapAnnotationsToRows.js +1 -1
  40. package/src/prepareCircularViewData.js +1 -1
  41. package/src/rotateSequenceDataToPosition.js +1 -1
  42. package/src/tidyUpAnnotation.js +1 -1
  43. package/src/tidyUpSequenceData.js +9 -2
package/calculateNebTm.d.ts CHANGED
@@ -1,3 +1,4 @@
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- export default function calculateNebTm(sequence: any, primerConc: any, { monovalentCationConc }?: {
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- monovalentCationConc: any;
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+ export default function calculateNebTm(sequence: any, { monovalentCationConc, primerConc }?: {
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+ monovalentCationConc?: number | undefined;
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+ primerConc?: number | undefined;
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  }): string | number;
package/calculateTm.d.ts CHANGED
@@ -1,2 +1,8 @@
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- declare function _default(sequence: any, type: any, A: any, R: any, C: any, Na: any): string | 0;
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+ declare function _default(_sequence: any, { type, A, R, primerConc, monovalentCationConc }?: {
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+ type: any;
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+ A: any;
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+ R: any;
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+ primerConc: any;
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+ monovalentCationConc: any;
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+ }): number;
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  export default _default;
package/degenerateDnaToAminoAcidMap.d.ts CHANGED
@@ -1,2 +1,2 @@
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  export default degenerateDnaToAminoAcidMap;
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- declare const degenerateDnaToAminoAcidMap: import("lodash").Dictionary<string>;
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+ declare const degenerateDnaToAminoAcidMap: import('lodash').Dictionary<string>;
package/degenerateRnaToAminoAcidMap.d.ts CHANGED
@@ -1,2 +1,2 @@
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  export default degenerateRnaToAminoAcidMap;
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- declare const degenerateRnaToAminoAcidMap: import("lodash").Dictionary<string>;
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+ declare const degenerateRnaToAminoAcidMap: import('lodash').Dictionary<string>;
package/getAminoAcidDataForEachBaseOfDna.d.ts CHANGED
@@ -10,11 +10,21 @@
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  positionInCodon:
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  }]
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  */
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- export default function getAminoAcidDataForEachBaseOfDna(originalSequenceString: any, forward: boolean, optionalSubrangeRange: any, isProteinSequence: boolean): {
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+ export default function getAminoAcidDataForEachBaseOfDna(originalSequenceString: any, forward: boolean, optionalSubrangeRange: any, isProteinSequence: boolean): ({
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  aminoAcid: any;
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  positionInCodon: number;
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  aminoAcidIndex: number;
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  sequenceIndex: any;
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- codonRange: any;
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+ codonRange: {
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+ start: any;
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+ end: any;
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+ };
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  fullCodon: boolean;
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- }[];
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+ } | {
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+ aminoAcid: null;
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+ positionInCodon: null;
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+ aminoAcidIndex: null;
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+ sequenceIndex: number;
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+ codonRange: null;
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+ fullCodon: null;
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+ })[];