@rnacanvas/search 1.4.0 → 2.0.0

package/README.md

@@ -45,6 +45,18 @@ var CUGCCA = new Motif('CUGCCA');
 CUGCCA.toString(); // "CUGCCA"
 ```
 
+## `function removeGapCharacters()`
+
+Returns a new string with all periods and dashes having been removed from the input string.
+
+Removing gap characters can make searching for motifs and complements a simpler task.
+
+```javascript
+removeGapCharacters('.A-GU..C--'); // "AGUC"
+
+removeGapCharacters('---...'); // ""
+```
+
 ## `class SequenceCharacter`
 
 Represents a character in a sequence.
@@ -217,3 +229,41 @@ A.complements(''); // throws
 A.complements('AG'); // throws
 A.complements('asdf'); // throws
 ```
+
+## `function isWobblePair()`
+
+Returns `true` if the two input characters form a `G:U` or `G:T` pair.
+
+```javascript
+isWobblePair('G', 'U'); // true
+isWobblePair('G', 'T'); // true
+
+isWobblePair('A', 'U'); // false
+isWobblePair('G', 'C'); // false
+
+// order doesn't matter
+isWobblePair('U', 'G'); // true
+
+// case doesn't matter
+isWobblePair('g', 'u'); // true
+
+var G = new SequenceCharacter('G');
+var U = new SequenceCharacter('U');
+
+// handles sequence character instances
+isWobblePair(G, U); // true
+
+var A = new SequenceCharacter('A');
+
+isWobblePair(A, U); // false
+```
+
+Returns `false` for empty strings
+and strings containing more than one character.
+
+```javascript
+isWobblePair('G', ''); // false
+
+// each string must be a single character
+isWobblePair('G', 'UT'); // false
+```

package/dist/index.d.ts

@@ -1,5 +1,3 @@
-import { Motif } from './Motif';
-export { Motif };
 import { removeGapCharacters } from './removeGapCharacters';
 export { removeGapCharacters };
 import { SequenceCharacter } from './SequenceCharacter';

package/dist/index.d.ts.map

@@ -1 +1 @@
-{"version":3,"file":"index.d.ts","sourceRoot":"","sources":["../src/index.ts"],"names":[],"mappings":"AAAA,OAAO,EAAE,KAAK,EAAE,MAAM,SAAS,CAAC;AAChC,OAAO,EAAE,KAAK,EAAE,CAAC;AAEjB,OAAO,EAAE,mBAAmB,EAAE,MAAM,uBAAuB,CAAC;AAC5D,OAAO,EAAE,mBAAmB,EAAE,CAAC;AAE/B,OAAO,EAAE,iBAAiB,EAAE,MAAM,qBAAqB,CAAC;AACxD,OAAO,EAAE,iBAAiB,EAAE,CAAC"}
+{"version":3,"file":"index.d.ts","sourceRoot":"","sources":["../src/index.ts"],"names":[],"mappings":"AAAA,OAAO,EAAE,mBAAmB,EAAE,MAAM,uBAAuB,CAAC;AAC5D,OAAO,EAAE,mBAAmB,EAAE,CAAC;AAE/B,OAAO,EAAE,iBAAiB,EAAE,MAAM,qBAAqB,CAAC;AACxD,OAAO,EAAE,iBAAiB,EAAE,CAAC"}

package/dist/index.js

@@ -1 +1 @@
-!function(e,t){"object"==typeof exports&&"object"==typeof module?module.exports=t():"function"==typeof define&&define.amd?define([],t):"object"==typeof exports?exports.search=t():e.search=t()}(this,()=>(()=>{"use strict";var e={d:(t,r)=>{for(var o in r)e.o(r,o)&&!e.o(t,o)&&Object.defineProperty(t,o,{enumerable:!0,get:r[o]})},o:(e,t)=>Object.prototype.hasOwnProperty.call(e,t),r:e=>{"undefined"!=typeof Symbol&&Symbol.toStringTag&&Object.defineProperty(e,Symbol.toStringTag,{value:"Module"}),Object.defineProperty(e,"__esModule",{value:!0})}},t={};e.r(t),e.d(t,{Motif:()=>o,SequenceCharacter:()=>c,removeGapCharacters:()=>n});var r;class o{constructor(e){r.set(this,void 0),function(e,t,r,o,n){if("m"===o)throw new TypeError("Private method is not writable");if("a"===o&&!n)throw new TypeError("Private accessor was defined without a setter");if("function"==typeof t?e!==t||!n:!t.has(e))throw new TypeError("Cannot write private member to an object whose class did not declare it");"a"===o?n.call(e,r):n?n.value=r:t.set(e,r)}(this,r,e,"f")}toString(){return function(e,t,r,o){if("a"===r&&!o)throw new TypeError("Private accessor was defined without a getter");if("function"==typeof t?e!==t||!o:!t.has(e))throw new TypeError("Cannot read private member from an object whose class did not declare it");return"m"===r?o:"a"===r?o.call(e):o?o.value:t.get(e)}(this,r,"f")}}function n(e){return e.replace(/[\.-]/g,"")}r=new WeakMap;var a,i=function(e,t,r,o){if("a"===r&&!o)throw new TypeError("Private accessor was defined without a getter");if("function"==typeof t?e!==t||!o:!t.has(e))throw new TypeError("Cannot read private member from an object whose class did not declare it");return"m"===r?o:"a"===r?o.call(e):o?o.value:t.get(e)};class c{constructor(e){if(a.set(this,void 0),0==e.length)throw new Error("Character cannot be an empty string.");if(e.length>1)throw new Error("Character must be a single character.");!function(e,t,r,o,n){if("m"===o)throw new TypeError("Private method is not writable");if("a"===o&&!n)throw new TypeError("Private accessor was defined without a setter");if("function"==typeof t?e!==t||!n:!t.has(e))throw new TypeError("Cannot write private member to an object whose class did not declare it");"a"===o?n.call(e,r):n?n.value=r:t.set(e,r)}(this,a,e,"f")}toString(){return i(this,a,"f")}matches(e){var t,r;if("string"!=typeof e&&(e=e.toString()),0==e.length)throw new Error("Other character cannot be an empty string.");if(e.length>1)throw new Error("Other character cannot be multiple characters.");let o=i(this,a,"f").toUpperCase();return e=e.toUpperCase(),!(!s.includes(o)||!s.includes(e))||!s.includes(o)&&!s.includes(e)&&("N"===o&&!s.includes(e)||"N"===e&&!s.includes(o)||(o in l?null!==(r=null===(t=l[o])||void 0===t?void 0:t.includes(e))&&void 0!==r&&r:o===e))}complements(e){var t,r;if("string"!=typeof e&&(e=e.toString()),0==e.length)throw new Error("Other character cannot be an empty string.");if(e.length>1)throw new Error("Other character cannot be multiple characters.");let o=i(this,a,"f").toUpperCase();return e=e.toUpperCase(),!(!s.includes(o)||!s.includes(e))||!s.includes(o)&&!s.includes(e)&&("N"===o&&!s.includes(e)||"N"===e&&!s.includes(o)||o in h&&null!==(r=null===(t=h[o])||void 0===t?void 0:t.includes(e))&&void 0!==r&&r)}}a=new WeakMap;const s=[...".-"],l={A:[..."A"],C:[..."C"],G:[..."G"],U:[..."UT"],T:[..."TU"],R:[..."AG"],Y:[..."CUT"],S:[..."GC"],W:[..."AUT"],K:[..."GUT"],M:[..."AC"],B:[..."CGUTYSK"],D:[..."AGUTRWK"],H:[..."ACUTYWM"],V:[..."ACGRSM"]},h={A:[..."UT"],C:[..."G"],G:[..."CUTY"],U:[..."AGR"],T:[..."AGR"],R:[..."UT"],Y:[..."G"]};return t})());
+!function(e,t){"object"==typeof exports&&"object"==typeof module?module.exports=t():"function"==typeof define&&define.amd?define([],t):"object"==typeof exports?exports.search=t():e.search=t()}(this,()=>(()=>{"use strict";var e={d:(t,r)=>{for(var n in r)e.o(r,n)&&!e.o(t,n)&&Object.defineProperty(t,n,{enumerable:!0,get:r[n]})},o:(e,t)=>Object.prototype.hasOwnProperty.call(e,t),r:e=>{"undefined"!=typeof Symbol&&Symbol.toStringTag&&Object.defineProperty(e,Symbol.toStringTag,{value:"Module"}),Object.defineProperty(e,"__esModule",{value:!0})}},t={};function r(e){return e.replace(/[\.-]/g,"")}e.r(t),e.d(t,{SequenceCharacter:()=>a,removeGapCharacters:()=>r});var n,o=function(e,t,r,n){if("a"===r&&!n)throw new TypeError("Private accessor was defined without a getter");if("function"==typeof t?e!==t||!n:!t.has(e))throw new TypeError("Cannot read private member from an object whose class did not declare it");return"m"===r?n:"a"===r?n.call(e):n?n.value:t.get(e)};class a{constructor(e){if(n.set(this,void 0),0==e.length)throw new Error("Character cannot be an empty string.");if(e.length>1)throw new Error("Character must be a single character.");!function(e,t,r,n,o){if("m"===n)throw new TypeError("Private method is not writable");if("a"===n&&!o)throw new TypeError("Private accessor was defined without a setter");if("function"==typeof t?e!==t||!o:!t.has(e))throw new TypeError("Cannot write private member to an object whose class did not declare it");"a"===n?o.call(e,r):o?o.value=r:t.set(e,r)}(this,n,e,"f")}toString(){return o(this,n,"f")}matches(e){var t,r;if("string"!=typeof e&&(e=e.toString()),0==e.length)throw new Error("Other character cannot be an empty string.");if(e.length>1)throw new Error("Other character cannot be multiple characters.");let a=o(this,n,"f").toUpperCase();return e=e.toUpperCase(),!(!i.includes(a)||!i.includes(e))||!i.includes(a)&&!i.includes(e)&&("N"===a&&!i.includes(e)||"N"===e&&!i.includes(a)||(a in c?null!==(r=null===(t=c[a])||void 0===t?void 0:t.includes(e))&&void 0!==r&&r:a===e))}complements(e){var t,r;if("string"!=typeof e&&(e=e.toString()),0==e.length)throw new Error("Other character cannot be an empty string.");if(e.length>1)throw new Error("Other character cannot be multiple characters.");let a=o(this,n,"f").toUpperCase();return e=e.toUpperCase(),!(!i.includes(a)||!i.includes(e))||!i.includes(a)&&!i.includes(e)&&("N"===a&&!i.includes(e)||"N"===e&&!i.includes(a)||a in s&&null!==(r=null===(t=s[a])||void 0===t?void 0:t.includes(e))&&void 0!==r&&r)}}n=new WeakMap;const i=[...".-"],c={A:[..."A"],C:[..."C"],G:[..."G"],U:[..."UT"],T:[..."TU"],R:[..."AG"],Y:[..."CUT"],S:[..."GC"],W:[..."AUT"],K:[..."GUT"],M:[..."AC"],B:[..."CGUTYSK"],D:[..."AGUTRWK"],H:[..."ACUTYWM"],V:[..."ACGRSM"]},s={A:[..."UT"],C:[..."G"],G:[..."CUTY"],U:[..."AGR"],T:[..."AGR"],R:[..."UT"],Y:[..."G"]};return t})());

package/dist/isWobblePair.d.ts

@@ -0,0 +1,8 @@
+import type { SequenceCharacter } from './SequenceCharacter';
+/**
+ * Returns true if the two characters form a G:U or G:T pair.
+ *
+ * Returns false for empty strings and strings containing more than one character.
+ */
+export declare function isWobblePair(c1: SequenceCharacter | string, c2: SequenceCharacter | string): boolean;
+//# sourceMappingURL=isWobblePair.d.ts.map

package/dist/isWobblePair.d.ts.map

@@ -0,0 +1 @@
+{"version":3,"file":"isWobblePair.d.ts","sourceRoot":"","sources":["../src/isWobblePair.ts"],"names":[],"mappings":"AAAA,OAAO,KAAK,EAAE,iBAAiB,EAAE,MAAM,qBAAqB,CAAC;AAE7D;;;;GAIG;AACH,wBAAgB,YAAY,CAAC,EAAE,EAAE,iBAAiB,GAAG,MAAM,EAAE,EAAE,EAAE,iBAAiB,GAAG,MAAM,GAAG,OAAO,CAiBpG"}

package/package.json

@@ -1,6 +1,6 @@
 {
   "name": "@rnacanvas/search",
-  "version": "1.4.0",
+  "version": "2.0.0",
   "description": "Find motifs and complements",
   "repository": {
     "type": "git",

package/dist/Motif.d.ts

@@ -1,6 +0,0 @@
-export declare class Motif {
-    #private;
-    constructor(motif: string);
-    toString(): string;
-}
-//# sourceMappingURL=Motif.d.ts.map

package/dist/Motif.d.ts.map

@@ -1 +0,0 @@
-{"version":3,"file":"Motif.d.ts","sourceRoot":"","sources":["../src/Motif.ts"],"names":[],"mappings":"AAAA,qBAAa,KAAK;;gBAGJ,KAAK,EAAE,MAAM;IAIzB,QAAQ,IAAI,MAAM;CAGnB"}