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/ryan-gorzek/opossum-v1-omics",4 "url": "https://github.com/ryan-gorzek/opossum-V1-omics",5 "host": "github.com",6 "commit": "8c490f6ef5d283fb52fcd1caf94be2381b94b983",7 "license": "MIT",8 "license_confirmed_by": "license file LICENSE",9 "redistribution": "yes",10 "files": [11 {12 "path": "LICENSE",13 "sha256": "c2771463575fc951164c9aed9f2f71d821c611d984bdf12c257cb455dd0526c6",14 "language": "License",15 "lines": 21,16 "truncated": false,17 "block": 9,18 "row": 278919 },20 {21 "path": "README.md",22 "sha256": "b4b2b0276139308bb3fa49e5b89b8c24b58516ca25998b3c844d210b00bc18f8",23 "language": "Text",24 "lines": 61,25 "truncated": false,26 "block": 9,27 "row": 1453728 },29 {30 "path": "config.R",31 "sha256": "3af2be3cb547309129f376bf143e42a913e58cd1e48b72d28c6fe04eecbc09ae",32 "language": "R",33 "lines": 98,34 "truncated": false,35 "block": 9,36 "row": 1305337 },38 {39 "path": "figure 1/1CD_OpossumMouse_AllCellUMAP.Rmd",40 "sha256": "12681c26a3f204f2eb9d6930af517b372471270b7d2487d8efb3ad82a7d7162d",41 "language": "R",42 "lines": 91,43 "truncated": false,44 "block": 9,45 "row": 1311946 },47 {48 "path": "figure 1/1E_OpossumMouse_AllSubclassDotPlot.Rmd",49 "sha256": "8ea1f0e2b4d33427e77442241378ef3346bf695dc8223d7a7a2d1f605b16f710",50 "language": "R",51 "lines": 69,52 "truncated": false,53 "block": 9,54 "row": 1303255 },56 {57 "path": "figure 1/1F_OpossumMouse_IntegratedSubclassOverlapHeatmap.Rmd",58 "sha256": "e74b21208e3df79584d61413555186469e5e2c0cc820a775495901a45a0adc23",59 "language": "R",60 "lines": 140,61 "truncated": false,62 "block": 9,63 "row": 1333864 },65 {66 "path": "figure 1/1GHIJK_OpossumMouse_ClassSubclassProportions.Rmd",67 "sha256": "90d6f4759ca0cd5b31c077718a4fba49a4cd053fb72508617efb0bd2599f3800",68 "language": "R",69 "lines": 244,70 "truncated": false,71 "block": 9,72 "row": 1362073 },74 {75 "path": "figure 2/2B_OpossumMouse_ITDiffusion.Rmd",76 "sha256": "a03b0d9e3abed13be70ccc4353b714430817d36a4577508e0bf454940c79324b",77 "language": "R",78 "lines": 196,79 "truncated": false,80 "block": 9,81 "row": 1332082 },83 {84 "path": "figure 2/2DEF_OpossumMouse_CrossSpeciesMapping.Rmd",85 "sha256": "0958886587b383d7416f06cda446160d22fc5d79240abfcdbca3b90775a788a9",86 "language": "R",87 "lines": 150,88 "truncated": false,89 "block": 9,90 "row": 1336591 },92 {93 "path": "figure 2/2GHIJKOP_OpossumMouse_ITArchetypes.Rmd",94 "sha256": "d26e84fcbaf595f1b11efd31f3ad9ca4bda4b178ad967c507aab20b4464caf75",95 "language": "R",96 "lines": 211,97 "truncated": false,98 "block": 9,99 "row": 13525100 },101 {102 "path": "figure 2/2LMN_OpossumMouse_WGCNAModules.Rmd",103 "sha256": "e4ac4db3c3a2e75cabeab9d4adc2f35401fbcfd5d3de0dfe92d51ded005603cb",104 "language": "R",105 "lines": 496,106 "truncated": false,107 "block": 9,108 "row": 13692109 },110 {111 "path": "figure 2/2Q_OpossumMouse_ITHVGCorrelations.Rmd",112 "sha256": "451dbf63735c36af95ec5ee5aae9c35aa7618d82d614c000ae8b552580b0ce0b",113 "language": "R",114 "lines": 236,115 "truncated": false,116 "block": 9,117 "row": 13485118 },119 {120 "path": "figure 2/TwoGHIJKOP_OpossumMouse_ITArchetypes.m",121 "sha256": "ae82881bb0d87cc16554f91cb531f2b67b9a2f3cb42d31f8b5107bd24f7b7bf3",122 "language": "MATLAB",123 "lines": 377,124 "truncated": false,125 "block": 9,126 "row": 5657127 },128 {129 "path": "figure 3/3A_Mouse_LabelSection.Rmd",130 "sha256": "5f61dc6a15da45033135a3f23fb4c64fc22036462a4dc37049b9861c82aee4be",131 "language": "R",132 "lines": 262,133 "truncated": false,134 "block": 9,135 "row": 13506136 },137 {138 "path": "figure 3/3A_Opossum_LabelSection.Rmd",139 "sha256": "e2093faff6d00ea50e7f2bc7d195ded3945e5b03429f2a047154f77c5c9af2b8",140 "language": "R",141 "lines": 260,142 "truncated": false,143 "block": 9,144 "row": 13511145 },146 {147 "path": "figure 3/3B_OpossumMouse_SpatialGeneExpression.Rmd",148 "sha256": "73a4035123cae95b90d7710acbb51d1ac84b01e465abbd81cfc4ffe796fa9b61",149 "language": "R",150 "lines": 201,151 "truncated": false,152 "block": 9,153 "row": 13414154 },155 {156 "path": "figure 3/3CD_Mouse_GlutamatergicColumn.Rmd",157 "sha256": "631bc22a00a7860428cf00989bd5d0434500fbb80f4a03183034214092f70c17",158 "language": "R",159 "lines": 134,160 "truncated": false,161 "block": 9,162 "row": 13238163 },164 {165 "path": "figure 3/3CD_Opossum_GlutamatergicColumn.Rmd",166 "sha256": "a560be93121b4f0838064cbdfecc54b98b4d34aab5f132d17c4d9744204e4873",167 "language": "R",168 "lines": 134,169 "truncated": false,170 "block": 9,171 "row": 13240172 },173 {174 "path": "figure 3/3FGHIJ_OpossumMouse_PCGradients.Rmd",175 "sha256": "71601a73cfa8381744bb9b9dc58d88365fd205e681a52088b37b344d663e43f0",176 "language": "R",177 "lines": 1108,178 "truncated": false,179 "block": 9,180 "row": 13842181 },182 {183 "path": "figure S1/S1A_OpossumMouse_AlignmentStats.Rmd",184 "sha256": "b9b5f1004604ed9cca884db2ac904ffd23c4372b8817de1d4a796cc2231c2262",185 "language": "R",186 "lines": 187,187 "truncated": false,188 "block": 9,189 "row": 13444190 },191 {192 "path": "figure S1/S1BC_OpossumMouse_IntergenicReadsUTRLengths.Rmd",193 "sha256": "b75a16cfe2f51bf874bdc9917ed34a2ccfbc3d868691485e2c549e0dd21b4396",194 "language": "R",195 "lines": 333,196 "truncated": false,197 "block": 9,198 "row": 13623199 },200 {201 "path": "figure S1/S1B_intergenic_distance_pipeline.sh",202 "sha256": "0e0447106131c23e7e6a3b33a57c4982c1089b20479f845c9c3adf728676c67c",203 "language": "Shell",204 "lines": 344,205 "truncated": false,206 "block": 9,207 "row": 14395208 },209 {210 "path": "figure S1/S1EF_OpossumMouse_GenesUMIs.Rmd",211 "sha256": "f2e55249ba8e05ac0c13c24ef55ed5ae1bda2c63603d0453052508d19836d9f1",212 "language": "R",213 "lines": 137,214 "truncated": false,215 "block": 9,216 "row": 13232217 },218 {219 "path": "preprocessing/0_Mouse_Save_in_10x_Format_for_Seurat.ipynb",220 "sha256": "7cf3c4e3187b9d2c1add57f576a7fb6bd3ecb223b3de60480890e5aad12e3c13",221 "language": "Jupyter",222 "lines": 71,223 "truncated": false,224 "block": 9,225 "row": 2282226 },227 {228 "path": "preprocessing/0_Opossum_ExtendGenomeAnnotation.Rmd",229 "sha256": "05cf5ca9e642220e259dcbc7680b677605b9b7577262201a34ecd1d24fef320f",230 "language": "R",231 "lines": 688,232 "truncated": false,233 "block": 9,234 "row": 13806235 },236 {237 "path": "preprocessing/1_Mouse_SplitClasses.Rmd",238 "sha256": "0533718f9bfabe072dd38ae1a7a3265a7409345e68ae48fbf7f2d2792bad0244",239 "language": "R",240 "lines": 140,241 "truncated": false,242 "block": 9,243 "row": 13384244 },245 {246 "path": "preprocessing/1_Opossum_SplitClasses.Rmd",247 "sha256": "ce8eaaba425ccae17393b2f28f05340bf03e33e9a09c54f70071546cc2be7f82",248 "language": "R",249 "lines": 142,250 "truncated": false,251 "block": 9,252 "row": 13374253 },254 {255 "path": "preprocessing/2a_Mouse_LabelGlutamatergic.Rmd",256 "sha256": "d183d23a9ebd8f3c6e64d449eed5f65aabd1718ba80e716547fcfd44398206e5",257 "language": "R",258 "lines": 136,259 "truncated": false,260 "block": 9,261 "row": 13394262 },263 {264 "path": "preprocessing/2a_Opossum_LabelGlutamatergic.Rmd",265 "sha256": "07051556ac259daf1ce23a0f530645e3f7a73bcb35caec6c86b04aeeecd13622",266 "language": "R",267 "lines": 318,268 "truncated": false,269 "block": 9,270 "row": 13607271 },272 {273 "path": "preprocessing/2b_Mouse_LabelGABAergic.Rmd",274 "sha256": "e1e224318c77dab9a7e83c8ea9eb06023085c2f21fdbd51ce255439adb600524",275 "language": "R",276 "lines": 145,277 "truncated": false,278 "block": 9,279 "row": 13403280 },281 {282 "path": "preprocessing/2b_Opossum_LabelGABAergic.Rmd",283 "sha256": "13b9c9daaf7b37ea645a235b000efb250c1ed0c3c2881d1abee67de036642e30",284 "language": "R",285 "lines": 294,286 "truncated": false,287 "block": 9,288 "row": 13538289 },290 {291 "path": "preprocessing/2c_Mouse_LabelNonneuronal.Rmd",292 "sha256": "02171399439569ea822ab0efe2661613b03da9054a52770565a0a833a5366cad",293 "language": "R",294 "lines": 132,295 "truncated": false,296 "block": 9,297 "row": 13368298 },299 {300 "path": "preprocessing/2c_Opossum_LabelNonneuronal.Rmd",301 "sha256": "069ecd46152366e0cd48fbf8d12815c68f59d43ed8c16876b3adaef77e4c85d3",302 "language": "R",303 "lines": 290,304 "truncated": false,305 "block": 9,306 "row": 13530307 },308 {309 "path": "preprocessing/3_Mouse_SelectRegions.ipynb",310 "sha256": "149967cdb74d0a427c4cc8da1998323b44a6e1a9b075743575b8d1a44cc368b2",311 "language": "Jupyter",312 "lines": 777,313 "truncated": false,314 "block": 9,315 "row": 2684316 },317 {318 "path": "preprocessing/3_Opossum_SelectRegions.ipynb",319 "sha256": "5b0163b186f55aeb3c7e2e3aed876d8f6014b2bfc51026c5f74d777944776415",320 "language": "Jupyter",321 "lines": 766,322 "truncated": false,323 "block": 9,324 "row": 2683325 },326 {327 "path": "preprocessing/4_Mouse_SubsetCombineColumns.Rmd",328 "sha256": "0e15a7efba449ee5de35054749da7d0fa7884747dff406a1a62a99a0faa14b54",329 "language": "R",330 "lines": 329,331 "truncated": false,332 "block": 9,333 "row": 13551334 },335 {336 "path": "preprocessing/4_Opossum_SubsetCombineColumns.Rmd",337 "sha256": "d977a286d5ea13ed6aa8e119d230d03bf06769afaa7bb81c8aa05b638c19d263",338 "language": "R",339 "lines": 329,340 "truncated": false,341 "block": 9,342 "row": 13555343 },344 {345 "path": "preprocessing/5_Mouse_LabelColumns.Rmd",346 "sha256": "39beb7654c62df335af6f0dd84f271884c2d7fa59b725bb9d8509ebebfa593b3",347 "language": "R",348 "lines": 662,349 "truncated": false,350 "block": 9,351 "row": 13781352 },353 {354 "path": "preprocessing/5_Opossum_LabelColumns.Rmd",355 "sha256": "e0aff57c114e0a994fa524029520a4e3906b10f2b6da9e48ff208501b5adaf0b",356 "language": "R",357 "lines": 681,358 "truncated": false,359 "block": 9,360 "row": 13790361 }362 ]363}