OpenScientificCodeRegistry/Database
Open Scientific Code Registry (OSCR): the authors' scripts The code published by the authors of open-access neuroscience papers, as found and verified by Open Scientific Code Registry (OSCR). Each file is here exactly as it is at the source, at the verified commit, under the license of its repository. 421,275 unique files (3,782 MB of text) from 8,849 repositories, in 24 Parquet block(s). Only files whose repository's license allows redistribution, confirmed by the repository's… See the full description on the dataset page: https://huggingface.co/datasets/OpenScientificCodeRegistry/Database.
05.6k
1{2 "format": "oscr-script-manifest/1",3 "repository": "github.com/vastgroup/vast-tools",4 "url": "https://github.com/vastgroup/vast-tools",5 "host": "github.com",6 "commit": "6c81751ffdff4d0f9392a8fd7f69d823891bbf25",7 "license": "MIT",8 "license_confirmed_by": "license file LICENSE",9 "redistribution": "yes",10 "files": [11 {12 "path": "LICENSE",13 "sha256": "789218aad0856f8d8e97a96dc692c3ab2b09eb23ed600673c95f1bf23c68247d",14 "language": "License",15 "lines": 18,16 "truncated": false,17 "block": 17,18 "row": 793019 },20 {21 "path": "R/Rlib/include.R",22 "sha256": "ca15d5a00f839d275e0cca8a15fe5fc53bc238e856e57f53783a2a0300377ed4",23 "language": "R",24 "lines": 33,25 "truncated": false,26 "block": 18,27 "row": 627828 },29 {30 "path": "R/Rlib/include_diff.R",31 "sha256": "7e4936424f9f76e914768cb617a730a2889a141bfee81ac582aef7c919a8465e",32 "language": "R",33 "lines": 295,34 "truncated": false,35 "block": 18,36 "row": 802937 },38 {39 "path": "R/psiplotter.R",40 "sha256": "69e64a70eed7c2c935f49f9dbae991e840b6d8e063ec3a3744b06e7d2d5f2c94",41 "language": "R",42 "lines": 293,43 "truncated": false,44 "block": 18,45 "row": 805046 },47 {48 "path": "R/vastdiff.R",49 "sha256": "5d76cad28a15c73c8412bb961887fe55e795b2e3a0206277b98a31630b89179d",50 "language": "R",51 "lines": 282,52 "truncated": false,53 "block": 18,54 "row": 801155 },56 {57 "path": "README.md",58 "sha256": "4797b6f3ec7867c3b931a596364f87e688c499dfd271b16d250e2445712da4e9",59 "language": "Text",60 "lines": 780,61 "truncated": false,62 "block": 18,63 "row": 1125664 },65 {66 "path": "bin/Add_to_ALT3.pl",67 "sha256": "5e45154d8c31ffc7a55f7a2d6cd5211aef4123e25413b43c7ae0554b307188ab",68 "language": "Perl",69 "lines": 392,70 "truncated": false,71 "block": 17,72 "row": 1701673 },74 {75 "path": "bin/Add_to_ALT5.pl",76 "sha256": "e7387d0858839343c2e1115ebb95f78448b7675c15b52b16b2803d8fa35d76a1",77 "language": "Perl",78 "lines": 378,79 "truncated": false,80 "block": 17,81 "row": 1701482 },83 {84 "path": "bin/Add_to_APR.pl",85 "sha256": "c94bfc9ec6e0b3c0a682840255573ba45bfd60278bdf8d24316534a844df92ed",86 "language": "Perl",87 "lines": 316,88 "truncated": false,89 "block": 17,90 "row": 1700991 },92 {93 "path": "bin/Add_to_COMBI.pl",94 "sha256": "04c89c635cd0ef4e516b78576b58402b9a494859bdbabb1505251276092a1dc9",95 "language": "Perl",96 "lines": 491,97 "truncated": false,98 "block": 17,99 "row": 17024100 },101 {102 "path": "bin/Add_to_FULL.pl",103 "sha256": "c637d2bbff80bc46c85e634e1f4f7881e09d89c312f8d56d8a05aae797694c02",104 "language": "Perl",105 "lines": 218,106 "truncated": false,107 "block": 17,108 "row": 16930109 },110 {111 "path": "bin/Add_to_MERGE3m.pl",112 "sha256": "f2a356f419f7e4465d3671371bd230c03e38de159016fffeabf3c3feba450d74",113 "language": "Perl",114 "lines": 105,115 "truncated": false,116 "block": 17,117 "row": 16876118 },119 {120 "path": "bin/Add_to_MIC.pl",121 "sha256": "7e6f6c4cd54edea67158f0fc669a33bfa53ed823c6078c3d8513a7dd39b602e3",122 "language": "Perl",123 "lines": 115,124 "truncated": false,125 "block": 17,126 "row": 16897127 },128 {129 "path": "bin/Analyze_COMBI.pl",130 "sha256": "f56827d4f3ff0aa1ddb404a3dc1360607847507ceb63bce8b57db3433c96efa1",131 "language": "Perl",132 "lines": 58,133 "truncated": false,134 "block": 17,135 "row": 16831136 },137 {138 "path": "bin/Analyze_EXSK.pl",139 "sha256": "362fa1de5f43dc5f82f2cacd2f6c37f60b25899811752b4820e44f3389c78c48",140 "language": "Perl",141 "lines": 127,142 "truncated": false,143 "block": 17,144 "row": 16912145 },146 {147 "path": "bin/Analyze_MIC.pl",148 "sha256": "179c2b2e183300e81aaf918fc3b76ad7659f24a06c88017249daf751206bfb1b",149 "language": "Perl",150 "lines": 188,151 "truncated": false,152 "block": 17,153 "row": 16936154 },155 {156 "path": "bin/Analyze_MULTI.pl",157 "sha256": "60d83f85f6bb3905676d6b2c232ddebe8a9b12c38a55de2a26a57ccd5d6357b3",158 "language": "Perl",159 "lines": 198,160 "truncated": false,161 "block": 17,162 "row": 16971163 },164 {165 "path": "bin/CompareEXPR.pl",166 "sha256": "b0033f08b3a590a74276bfc2e80f173b5e4242c1ccb4b717568317886edb7a88",167 "language": "Perl",168 "lines": 663,169 "truncated": false,170 "block": 17,171 "row": 17035172 },173 {174 "path": "bin/ComparePSI.pl",175 "sha256": "20cd7e68aa7b2f338b3a5dd15082969b4c8008108b68d888e66c57ec0056ed3a",176 "language": "Perl",177 "lines": 1007,178 "truncated": false,179 "block": 17,180 "row": 17061181 },182 {183 "path": "bin/Filter_and_clean_Combine.pl",184 "sha256": "7f1faab3e7ad2c4496238c20586be4639b7d2ac9c0191178f06256bf54a82034",185 "language": "Perl",186 "lines": 568,187 "truncated": false,188 "block": 17,189 "row": 17021190 },191 {192 "path": "bin/GetPSI_allannot_VT.pl",193 "sha256": "2df2d5d40322455fb1110d60b5202316f34ab44aad40f557d13b3cfb3fcb1e87",194 "language": "Perl",195 "lines": 460,196 "truncated": false,197 "block": 17,198 "row": 17020199 },200 {201 "path": "bin/LftOvr_INCLUSION_LEVELS_FULL.pl",202 "sha256": "732549626c306d9a7e24c955a4305c62686b3ac665be404fcaa598abb5ca2718",203 "language": "Perl",204 "lines": 397,205 "truncated": false,206 "block": 17,207 "row": 17018208 },209 {210 "path": "bin/MakeSummarySAM.pl",211 "sha256": "1ed6141562bbbebd79f237b43170db631718bdf4a10cf421f4f105bc4c021e54",212 "language": "Perl",213 "lines": 37,214 "truncated": false,215 "block": 17,216 "row": 16782217 },218 {219 "path": "bin/MakeTableRPKMs.pl",220 "sha256": "e1973abbbca54550c75157b0679a56b27d7b87bcb367f2fce6aae71e831d7409",221 "language": "Perl",222 "lines": 299,223 "truncated": false,224 "block": 17,225 "row": 17000226 },227 {228 "path": "bin/MergeOutputs.pl",229 "sha256": "d5485ba28d8ba700c53c1f184691c508f0f0cf8171e7ff1cc2ca3ac0d009f6f0",230 "language": "Perl",231 "lines": 812,232 "truncated": false,233 "block": 17,234 "row": 17051235 },236 {237 "path": "bin/RI_MakeCoverageKey.pl",238 "sha256": "217c923d1b06006ecb318fb38cf715195431f8f9afd08d5e6e2b267a9a7ea08b",239 "language": "Perl",240 "lines": 189,241 "truncated": false,242 "block": 17,243 "row": 16953244 },245 {246 "path": "bin/RI_MakeCoverageKey_v2.pl",247 "sha256": "2d851910a2bc06f2656df7f4bd6a8921e7845acd4cfc6c1669cd8328cea7cb97",248 "language": "Perl",249 "lines": 244,250 "truncated": false,251 "block": 17,252 "row": 16986253 },254 {255 "path": "bin/RI_MakeTablePIR.R",256 "sha256": "efe15c5ef80c0641775ff52ae73298dceae08087a63ed516a9d888f55f6ea04f",257 "language": "R",258 "lines": 216,259 "truncated": false,260 "block": 18,261 "row": 7949262 },263 {264 "path": "bin/RI_summarize.pl",265 "sha256": "c5163ecb4e7fdef9a33508813b079345c319284291565363a39bb0ae50d31aa1",266 "language": "Perl",267 "lines": 82,268 "truncated": false,269 "block": 17,270 "row": 16878271 },272 {273 "path": "bin/RI_summarize_introns.pl",274 "sha256": "b59c3fba695c172e7e1b9ae9524ff331c8171835a72163fc3355716d014e5abf",275 "language": "Perl",276 "lines": 69,277 "truncated": false,278 "block": 17,279 "row": 16854280 },281 {282 "path": "bin/RI_summarize_introns_v2.pl",283 "sha256": "5eef45b2cf57feb317c6d8963dfda8b98855d47301f5ef39726b06e2abe4f653",284 "language": "Perl",285 "lines": 80,286 "truncated": false,287 "block": 17,288 "row": 16879289 },290 {291 "path": "bin/RI_summarize_v2.pl",292 "sha256": "5cab4b6a8a51923953f6705739496af93dd73af647c89a6aefe6fe91b203abd6",293 "language": "Perl",294 "lines": 192,295 "truncated": false,296 "block": 17,297 "row": 16934298 },299 {300 "path": "bin/RunDBS_1.pl",301 "sha256": "ab9ef72868a984f6ca5c7b9cf069db7ab57976b71cc908801fd6b0c7656f298e",302 "language": "Perl",303 "lines": 953,304 "truncated": false,305 "block": 17,306 "row": 17056307 },308 {309 "path": "bin/RunDBS_2.pl",310 "sha256": "ac964ccd03230e87975cfe74e3daa13efcc6306573f7de4a7ba2c3abd0b242ef",311 "language": "Perl",312 "lines": 618,313 "truncated": false,314 "block": 17,315 "row": 17044316 },317 {318 "path": "bin/Trim.pl",319 "sha256": "d0c5352ecb65b20313a72f43997f9af767e80548e38fe8601a1b0a6dbe6d15f0",320 "language": "Perl",321 "lines": 144,322 "truncated": false,323 "block": 17,324 "row": 16900325 },326 {327 "path": "bin/expr_RPKM.pl",328 "sha256": "417797c014da959ecea3597a7da7f30d2ef8a77084a637dfa93b409ec029c090",329 "language": "Perl",330 "lines": 148,331 "truncated": false,332 "block": 17,333 "row": 16920334 },335 {336 "path": "install.R",337 "sha256": "4e89be2822c11b34ea1b7d6793704d21943794e15ef8806dd1a0df3e8516e1f0",338 "language": "R",339 "lines": 135,340 "truncated": false,341 "block": 18,342 "row": 7298343 },344 {345 "path": "tests/tests.sh",346 "sha256": "c5dda84f59d8dd66bfdaf635327eb5ed2a91bc3760be2f97dd6ec86c77388fd3",347 "language": "Shell",348 "lines": 13,349 "truncated": false,350 "block": 18,351 "row": 8873352 }353 ]354}