Team Ai
Datasetpublic

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.

sourceHugging Faceotherupdated 2d agoView on Hugging Face
0likes5.6kdownloads
github.com__samuel-marsh__sccustomize.json615 linesDownload Raw Back to cd
1{2 "format": "oscr-script-manifest/1",3 "repository": "github.com/samuel-marsh/sccustomize",4 "url": "https://github.com/samuel-marsh/scCustomize",5 "host": "github.com",6 "commit": "c23a7122fe9f403d31966d65050967a28953b175",7 "license": "GPL-3.0",8 "license_confirmed_by": "license file LICENSE.md",9 "redistribution": "yes",10 "files": [11  {12   "path": "LICENSE.md",13   "sha256": "585e25ef8f5946a52bf2aed68d5becfc38be94a8663aa01c1b31d88aa57f1de3",14   "language": "License",15   "lines": 595,16   "truncated": false,17   "block": 2,18   "row": 115719  },20  {21   "path": "R/Color_Palettes.R",22   "sha256": "aa309a79bf00b57ea47bc71c50ad2796cbe8ffae5a25d03bb8241cd8decf409e",23   "language": "R",24   "lines": 609,25   "truncated": false,26   "block": 13,27   "row": 303228  },29  {30   "path": "R/Data.R",31   "sha256": "a78f3f4a2a2e75a6ead65c85bc374b65ef3072e7301ce5e80eba9b5b82c0c748",32   "language": "R",33   "lines": 268,34   "truncated": false,35   "block": 13,36   "row": 283437  },38  {39   "path": "R/Deprecated.R",40   "sha256": "c463d2e1b8591148886356fa574abb44507b3550f623bfa16c1e215646824e53",41   "language": "R",42   "lines": 100,43   "truncated": false,44   "block": 13,45   "row": 168946  },47  {48   "path": "R/Generics.R",49   "sha256": "893072ab9d4f43876aba4ad795157eeba7fb402e115ac742315aeb5bd9f9ca1e",50   "language": "R",51   "lines": 233,52   "truncated": false,53   "block": 13,54   "row": 229355  },56  {57   "path": "R/Internal_QC_Utilities.R",58   "sha256": "08e5fd191c5c7351281b79c33a433b826a4c08f97e5c8a6d0c36a6fbacb9e97e",59   "language": "R",60   "lines": 2867,61   "truncated": false,62   "block": 13,63   "row": 346864  },65  {66   "path": "R/Internal_Utilities.R",67   "sha256": "051d4654983b13bbb667f51700675362900930b4670162bdc12dd0922ddd7d28",68   "language": "R",69   "lines": 1039,70   "truncated": false,71   "block": 13,72   "row": 327273  },74  {75   "path": "R/LIGER_Internal_Utilities.R",76   "sha256": "32647362111d481fac0709084cfc178945dda7f5318f84db77a6f17bdad1012c",77   "language": "R",78   "lines": 2368,79   "truncated": false,80   "block": 13,81   "row": 346082  },83  {84   "path": "R/LIGER_Plotting.R",85   "sha256": "8261208ac6c649858146a72834731738da0736f38ecfefac5c9fa9403a4a14ba",86   "language": "R",87   "lines": 328,88   "truncated": false,89   "block": 13,90   "row": 295891  },92  {93   "path": "R/LIGER_Utilities.R",94   "sha256": "11e8ab6b140e419b122f9c599310a89b0ddef24f6c68182ef5a13244f57a9c48",95   "language": "R",96   "lines": 1917,97   "truncated": false,98   "block": 13,99   "row": 3424100  },101  {102   "path": "R/Object_Conversion.R",103   "sha256": "c1787ae9d54e3d77c5e3641aa0cb1a46d59ea79cbcfdd607b171ae5d0b5b9789",104   "language": "R",105   "lines": 1584,106   "truncated": false,107   "block": 13,108   "row": 3404109  },110  {111   "path": "R/Plotting_Nebulosa.R",112   "sha256": "6486201d4a185ba10b4a741afe41f2f730778193c894c671a983e402aea3b0c5",113   "language": "R",114   "lines": 246,115   "truncated": false,116   "block": 13,117   "row": 2628118  },119  {120   "path": "R/Plotting_QC_Seq_10X.R",121   "sha256": "aab2755b8832d6f3039978892471a59b00fb912b03945b50da421eab9d0414a9",122   "language": "R",123   "lines": 2245,124   "truncated": false,125   "block": 13,126   "row": 3450127  },128  {129   "path": "R/Plotting_QC_Seurat.R",130   "sha256": "32e21147397f50a4feda288ad58aa1d3e2d4b42e3487c2c93ed2556d6949e290",131   "language": "R",132   "lines": 1441,133   "truncated": false,134   "block": 13,135   "row": 3413136  },137  {138   "path": "R/Plotting_Seurat.R",139   "sha256": "ab3570a43ed8697384223f5f3d4ce6d08ad78212fcc4df8bc58d8bc72836edc8",140   "language": "R",141   "lines": 3297,142   "truncated": false,143   "block": 13,144   "row": 3483145  },146  {147   "path": "R/Plotting_Seurat_Iterative.R",148   "sha256": "14313e11c73eaf541271faef47b42dc7d81a9f1cf6f75104d798ad77c6edf1a0",149   "language": "R",150   "lines": 1902,151   "truncated": false,152   "block": 13,153   "row": 3446154  },155  {156   "path": "R/Plotting_Shared.R",157   "sha256": "6e21e6e558e3ae13d96493d87accba68182e06632b19258e30d0d302bc46577e",158   "language": "R",159   "lines": 188,160   "truncated": false,161   "block": 13,162   "row": 2343163  },164  {165   "path": "R/Plotting_Statistics.R",166   "sha256": "dabd33602388afd7c0c82b067b6e05fd3beb40a65f7cd479effb797fd46a5104",167   "language": "R",168   "lines": 1206,169   "truncated": false,170   "block": 13,171   "row": 3367172  },173  {174   "path": "R/Plotting_Ultilities_Themes.R",175   "sha256": "7320eb0c015821bda36fad5c751341c5c087289a54680915474bdff64cc0c6b1",176   "language": "R",177   "lines": 217,178   "truncated": false,179   "block": 13,180   "row": 2279181  },182  {183   "path": "R/Plotting_Utilities_Internal.R",184   "sha256": "5f7318646af01cc99cc2e9abf636a539e7ccf751c4014bee38275627c2cab335",185   "language": "R",186   "lines": 2173,187   "truncated": false,188   "block": 13,189   "row": 3457190  },191  {192   "path": "R/Read_Write_Data.R",193   "sha256": "2e42d1bc274abccf9a4fde3fb7a1fd5e7a1312599ad322b140c25889c9e174fd",194   "language": "R",195   "lines": 2335,196   "truncated": false,197   "block": 13,198   "row": 3452199  },200  {201   "path": "R/Reexports.R",202   "sha256": "322ed66bc8b054a1a2d9a3e47f669b9b582eda39f9fc84249e9552428f3de87e",203   "language": "R",204   "lines": 48,205   "truncated": false,206   "block": 13,207   "row": 1161208  },209  {210   "path": "R/Statistics.R",211   "sha256": "7d4c6d4c1eeb67ae09b61730a03c70c5d395ebf64d6b7e253bb52a311268c34a",212   "language": "R",213   "lines": 610,214   "truncated": false,215   "block": 13,216   "row": 3134217  },218  {219   "path": "R/Utilities.R",220   "sha256": "0fc4b40345507f56dde738a2904288f3321c7f58d92b8a43b4db43d01751c5ac",221   "language": "R",222   "lines": 2235,223   "truncated": false,224   "block": 13,225   "row": 3442226  },227  {228   "path": "R/Utilities_Objects.R",229   "sha256": "c20006cbe1e37243682510ffb9dbe4c34d11f7491792c5e0a24eefcc3f7c7cd5",230   "language": "R",231   "lines": 1203,232   "truncated": false,233   "block": 13,234   "row": 3376235  },236  {237   "path": "R/Utilities_QC_Seurat.R",238   "sha256": "9cb0e8012f8dfc5d13b058daf89f1ceba5ecfb1de14e4e662876af80b14ab0d1",239   "language": "R",240   "lines": 1532,241   "truncated": false,242   "block": 13,243   "row": 3422244  },245  {246   "path": "R/zzz.R",247   "sha256": "91beca0369f486bf3e5167ace0b8b852bdc8a972436b7e7e9e2efed6e47eda5e",248   "language": "R",249   "lines": 68,250   "truncated": false,251   "block": 13,252   "row": 1718253  },254  {255   "path": "README.md",256   "sha256": "6661c33c9aa668b1298abafc34f19a795a0c5143a0cb58c7fa98715094a79886",257   "language": "Text",258   "lines": 67,259   "truncated": false,260   "block": 13,261   "row": 6491262  },263  {264   "path": "data-raw/Create_Ensembl_ID_MALAT1_Gene_Lists_scCustomize.R",265   "sha256": "b4b7a5c12e0982049ada6e115fed75bef40d439a08a307d5dbc45bba5dc78a6c",266   "language": "R",267   "lines": 66,268   "truncated": false,269   "block": 13,270   "row": 1261271  },272  {273   "path": "data-raw/Create_Ensembl_ID_Mito_Ribo_Hemo_Lists_scCuztomize.R",274   "sha256": "dc646c289030929a152ad36235e86f125ec7ce48bfb07f259153862e17baa040",275   "language": "R",276   "lines": 224,277   "truncated": false,278   "block": 13,279   "row": 2294280  },281  {282   "path": "data-raw/Create_Ensembl_IEG_Gene_Lists_scCustomize.R",283   "sha256": "a51353d7f3d5b62357cb7ba1dafe6e2a7e38369aad1b7461f8b902c30e155140",284   "language": "R",285   "lines": 71,286   "truncated": false,287   "block": 13,288   "row": 1336289  },290  {291   "path": "data-raw/Create_exAM_Gene_Lists_scCustomize.R",292   "sha256": "f935febabbc3755e487d295cbd3f6ddc244b2d3fd1f691997ff95515fcc7420e",293   "language": "R",294   "lines": 168,295   "truncated": false,296   "block": 13,297   "row": 2187298  },299  {300   "path": "data-raw/Create_lncRNA_Gene_Lists_scCustomize.R",301   "sha256": "99c265e36b9562cbb7e512a1f89fd7ce9a65bf576902b84a60d582131165fe54",302   "language": "R",303   "lines": 153,304   "truncated": false,305   "block": 13,306   "row": 1982307  },308  {309   "path": "data-raw/Create_msigdb_Gene_Lists_scCustomize.R",310   "sha256": "e341feddcf58052ddce74cd3cd0da5fd048d59ce4f4365bb4b4290d27bd5e5e5",311   "language": "R",312   "lines": 362,313   "truncated": false,314   "block": 13,315   "row": 2725316  },317  {318   "path": "docs/articles/Cell_Bender_Functions_files/kePrint-0.0.1/kePrint.js",319   "sha256": "2ed0c9712b828247cccd3b52d68119a976dd8a9afae0af67d144a52493a9ba8e",320   "language": "JavaScript",321   "lines": 8,322   "truncated": false,323   "block": 11,324   "row": 10993325  },326  {327   "path": "docs/articles/Gene_Expression_Plotting_files/kePrint-0.0.1/kePrint.js",328   "sha256": "2ed0c9712b828247cccd3b52d68119a976dd8a9afae0af67d144a52493a9ba8e",329   "language": "JavaScript",330   "lines": 8,331   "truncated": false,332   "block": 11,333   "row": 10993334  },335  {336   "path": "docs/articles/Helpers_and_Utilities_files/kePrint-0.0.1/kePrint.js",337   "sha256": "2ed0c9712b828247cccd3b52d68119a976dd8a9afae0af67d144a52493a9ba8e",338   "language": "JavaScript",339   "lines": 8,340   "truncated": false,341   "block": 11,342   "row": 10993343  },344  {345   "path": "docs/articles/Markers_and_Cluster_Annotation_files/kePrint-0.0.1/kePrint.js",346   "sha256": "2ed0c9712b828247cccd3b52d68119a976dd8a9afae0af67d144a52493a9ba8e",347   "language": "JavaScript",348   "lines": 8,349   "truncated": false,350   "block": 11,351   "row": 10993352  },353  {354   "path": "docs/articles/Object_Conversion_files/kePrint-0.0.1/kePrint.js",355   "sha256": "2ed0c9712b828247cccd3b52d68119a976dd8a9afae0af67d144a52493a9ba8e",356   "language": "JavaScript",357   "lines": 8,358   "truncated": false,359   "block": 11,360   "row": 10993361  },362  {363   "path": "docs/articles/Object_QC_Functions_files/kePrint-0.0.1/kePrint.js",364   "sha256": "2ed0c9712b828247cccd3b52d68119a976dd8a9afae0af67d144a52493a9ba8e",365   "language": "JavaScript",366   "lines": 8,367   "truncated": false,368   "block": 11,369   "row": 10993370  },371  {372   "path": "docs/articles/QC_Plots_files/kePrint-0.0.1/kePrint.js",373   "sha256": "2ed0c9712b828247cccd3b52d68119a976dd8a9afae0af67d144a52493a9ba8e",374   "language": "JavaScript",375   "lines": 8,376   "truncated": false,377   "block": 11,378   "row": 10993379  },380  {381   "path": "docs/articles/Sequencing_QC_Plots_files/kePrint-0.0.1/kePrint.js",382   "sha256": "2ed0c9712b828247cccd3b52d68119a976dd8a9afae0af67d144a52493a9ba8e",383   "language": "JavaScript",384   "lines": 8,385   "truncated": false,386   "block": 11,387   "row": 10993388  },389  {390   "path": "docs/articles/Statistics_files/kePrint-0.0.1/kePrint.js",391   "sha256": "2ed0c9712b828247cccd3b52d68119a976dd8a9afae0af67d144a52493a9ba8e",392   "language": "JavaScript",393   "lines": 8,394   "truncated": false,395   "block": 11,396   "row": 10993397  },398  {399   "path": "docs/articles/Update_Gene_Symbols_files/kePrint-0.0.1/kePrint.js",400   "sha256": "2ed0c9712b828247cccd3b52d68119a976dd8a9afae0af67d144a52493a9ba8e",401   "language": "JavaScript",402   "lines": 8,403   "truncated": false,404   "block": 11,405   "row": 10993406  },407  {408   "path": "docs/articles/cNMF_Functionality_files/kePrint-0.0.1/kePrint.js",409   "sha256": "2ed0c9712b828247cccd3b52d68119a976dd8a9afae0af67d144a52493a9ba8e",410   "language": "JavaScript",411   "lines": 8,412   "truncated": false,413   "block": 11,414   "row": 10993415  },416  {417   "path": "docs/bootstrap-toc.js",418   "sha256": "f74f76927fe172f26d6be0eba938e1a9f3f01477ae6b6b310655577e72bc7478",419   "language": "JavaScript",420   "lines": 159,421   "truncated": false,422   "block": 3,423   "row": 6905424  },425  {426   "path": "docs/docsearch.js",427   "sha256": "7d6964deb026efa1c15de6eec625a65b2a0a2e93cc389d9fe7fde6b3699e6cc7",428   "language": "JavaScript",429   "lines": 85,430   "truncated": false,431   "block": 3,432   "row": 6849433  },434  {435   "path": "docs/pkgdown.js",436   "sha256": "0ab1216121aa67d206c48fd84cdb95ae9c8a17360dcb0cb0f74c8a69c9b7b065",437   "language": "JavaScript",438   "lines": 108,439   "truncated": false,440   "block": 3,441   "row": 6875442  },443  {444   "path": "vignettes/articles/Cell_Bender_Functions.Rmd",445   "sha256": "46ec436ceb2d56bc189f4e00340af63038252a04a0abfe5c50086cb2cc331567",446   "language": "R",447   "lines": 296,448   "truncated": false,449   "block": 13,450   "row": 2919451  },452  {453   "path": "vignettes/articles/Color_Palettes.Rmd",454   "sha256": "db26496867c262ed530800ba69201c0c74349c88ad882082c36197674fd1c34d",455   "language": "R",456   "lines": 234,457   "truncated": false,458   "block": 13,459   "row": 2782460  },461  {462   "path": "vignettes/articles/FAQ.Rmd",463   "sha256": "1d80af3280ced7fc0e622b66ae48a68ba7639b3c8cc5bd505c99b7cd913e18a5",464   "language": "R",465   "lines": 77,466   "truncated": false,467   "block": 13,468   "row": 1789469  },470  {471   "path": "vignettes/articles/Gene_Expression_Plotting.Rmd",472   "sha256": "40a1e8f7ed68085b5a6e68704f36f6a7bb2e3336101fb222740d95fe48ef882b",473   "language": "R",474   "lines": 976,475   "truncated": false,476   "block": 13,477   "row": 3395478  },479  {480   "path": "vignettes/articles/Helpers_and_Utilities.Rmd",481   "sha256": "0f105d3d67250fc102f5898cdf4f8c3244386871bcf92683bd33508ace594c69",482   "language": "R",483   "lines": 519,484   "truncated": false,485   "block": 13,486   "row": 3183487  },488  {489   "path": "vignettes/articles/Installation.Rmd",490   "sha256": "e8dc8824ecb8a7968cecf41f9b0edd2785c8a05f50b337b7ce6bba846f04bc35",491   "language": "R",492   "lines": 82,493   "truncated": false,494   "block": 13,495   "row": 1538496  },497  {498   "path": "vignettes/articles/Iterative_Plotting.Rmd",499   "sha256": "68dcf73f9088ed2a98f99a04d8c3e52a96c8caab3ef5016565f08feeceba7457",500   "language": "R",501   "lines": 88,502   "truncated": false,503   "block": 13,504   "row": 1945505  },506  {507   "path": "vignettes/articles/LIGER_Functions.Rmd",508   "sha256": "a84d5e37e7ef04b343b3531ede26738c406166cf9bf4c0d9f3a4f786db7ffe70",509   "language": "R",510   "lines": 274,511   "truncated": false,512   "block": 13,513   "row": 2821514  },515  {516   "path": "vignettes/articles/Markers_and_Cluster_Annotation.Rmd",517   "sha256": "651a3cb8af9653b05481a989b99ceb4f0c082e152955c5bed372afc0a762da67",518   "language": "R",519   "lines": 244,520   "truncated": false,521   "block": 13,522   "row": 2652523  },524  {525   "path": "vignettes/articles/Misc_Functions.Rmd",526   "sha256": "8c9f15b1b0eb0e79dadd7753130812985247e8519adfde3fa2478c2254b7bfc7",527   "language": "R",528   "lines": 92,529   "truncated": false,530   "block": 13,531   "row": 1675532  },533  {534   "path": "vignettes/articles/Object_Conversion.Rmd",535   "sha256": "d3efac10b7c9021b393f895e1b016133a3763b761613503e6ef9ae9699929bf7",536   "language": "R",537   "lines": 121,538   "truncated": false,539   "block": 13,540   "row": 1924541  },542  {543   "path": "vignettes/articles/Object_QC_Functions.Rmd",544   "sha256": "587cb2822d993463f4e6f89d543bb4e1d3aa7056bb805787476c014b6297ca77",545   "language": "R",546   "lines": 364,547   "truncated": false,548   "block": 13,549   "row": 3069550  },551  {552   "path": "vignettes/articles/QC_Plots.Rmd",553   "sha256": "a765dd041d86a0365ce89605f8714a18aa25e78fd02d8dce26a7bb59b5dce864",554   "language": "R",555   "lines": 284,556   "truncated": false,557   "block": 13,558   "row": 2873559  },560  {561   "path": "vignettes/articles/Read_and_Write_Functions.Rmd",562   "sha256": "7b428d588fb8226293ce1e0225f821d68bd2d0c399edce92f780984bc9e25411",563   "language": "R",564   "lines": 261,565   "truncated": false,566   "block": 13,567   "row": 2841568  },569  {570   "path": "vignettes/articles/Sequencing_QC_Plots.Rmd",571   "sha256": "cbd83abccd0bf8faff4fb2bcd8a30a097ed87a069d33871a3c9baa246e1ba940",572   "language": "R",573   "lines": 180,574   "truncated": false,575   "block": 13,576   "row": 2471577  },578  {579   "path": "vignettes/articles/Spatial_Plotting.Rmd",580   "sha256": "9784d475269d2256fe3b285c126960bcb6d40fc0f0c632be7654dda58bcec8ec",581   "language": "R",582   "lines": 117,583   "truncated": false,584   "block": 13,585   "row": 2009586  },587  {588   "path": "vignettes/articles/Statistics.Rmd",589   "sha256": "dc1bce398801f95cd170a073b95b1cec6f1692ecdbbe2743b44b569e9a34fe1e",590   "language": "R",591   "lines": 294,592   "truncated": false,593   "block": 13,594   "row": 2714595  },596  {597   "path": "vignettes/articles/Update_Gene_Symbols.Rmd",598   "sha256": "49bdcedc466a661937a018b4be4e32b7ce1d5e906132ad495b77a2b839482d05",599   "language": "R",600   "lines": 168,601   "truncated": false,602   "block": 13,603   "row": 2347604  },605  {606   "path": "vignettes/articles/cNMF_Functionality.Rmd",607   "sha256": "61e3df257873f53f5d443f809336d92339e372cdcb015eb712e3c4438a9a6086",608   "language": "R",609   "lines": 208,610   "truncated": false,611   "block": 13,612   "row": 2556613  }614 ]615}