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__jigenkoike__sperrfy.json624 linesDownload Raw Back to a6
1{2 "format": "oscr-script-manifest/1",3 "repository": "github.com/jigenkoike/sperrfy",4 "url": "https://github.com/JigenKoike/SPERRFY",5 "host": "github.com",6 "commit": "3337b9b9aedf68476f906cefdd7e8ea7479b93b5",7 "license": "MIT",8 "license_confirmed_by": "license file LICENSE",9 "redistribution": "yes",10 "files": [11  {12   "path": "LICENSE",13   "sha256": "cc36745b9c3e7590c46de29b3ecb1bf63e9555a39362aafedf20a60a9f55f0ca",14   "language": "License",15   "lines": 21,16   "truncated": false,17   "block": 10,18   "row": 610319  },20  {21   "path": "README.md",22   "sha256": "e579be55fb87b017264d5af511eb5c1b3798e7cfad2bd27c9c45322d07a1bef2",23   "language": "Text",24   "lines": 56,25   "truncated": false,26   "block": 10,27   "row": 1981328  },29  {30   "path": "demonstrations.m",31   "sha256": "67998878054d8911d128f0081889d4c10cf11bc3ba8a9c7e91438cb3e30d3953",32   "language": "MATLAB",33   "lines": 93,34   "truncated": false,35   "block": 10,36   "row": 838437  },38  {39   "path": "main_script.m",40   "sha256": "bbb7a75e7503d6ad1dc4736df2648a4fe920b2ddd3490ec8f083ed7f8a74605d",41   "language": "MATLAB",42   "lines": 96,43   "truncated": false,44   "block": 10,45   "row": 838046  },47  {48   "path": "src/classes/AnalysisDataFactory.m",49   "sha256": "691db73b312e3701a93500785fccce72fa26c5b455ce63e370162e15f487db86",50   "language": "MATLAB",51   "lines": 123,52   "truncated": false,53   "block": 10,54   "row": 861455  },56  {57   "path": "src/classes/Brain3DStructureVisualizer.m",58   "sha256": "fc8d3245315c10e43ce1ca5cf99f53077342095b0558ba694a9b833e6b9fcf10",59   "language": "MATLAB",60   "lines": 120,61   "truncated": false,62   "block": 10,63   "row": 855664  },65  {66   "path": "src/classes/BrainRegionInformation.m",67   "sha256": "40516820c0c2f66f1acc64d8c8d9fc1b084268e8ab228e801e5820566f746c09",68   "language": "MATLAB",69   "lines": 111,70   "truncated": false,71   "block": 10,72   "row": 828573  },74  {75   "path": "src/classes/BrainSpace3D.m",76   "sha256": "d8f9e35e2702ca730bea689636ba6fa532a4568f697670e3b219e7ab31d4ff80",77   "language": "MATLAB",78   "lines": 58,79   "truncated": false,80   "block": 10,81   "row": 766182  },83  {84   "path": "src/classes/CCAResults.m",85   "sha256": "7a9db3453a48e8f1f4294f9273e7a0deac06d3373fa2461db5a6c8ad5bc58343",86   "language": "MATLAB",87   "lines": 23,88   "truncated": false,89   "block": 10,90   "row": 649091  },92  {93   "path": "src/classes/ConnectionMatrix.m",94   "sha256": "e15074a9fc3756b517cf785e246ad5625cc1c0933760a5536419166d120d0d42",95   "language": "MATLAB",96   "lines": 52,97   "truncated": false,98   "block": 10,99   "row": 7516100  },101  {102   "path": "src/classes/ConnectomeAnalysisRunner.m",103   "sha256": "9a30e8adfab27cc4ba6d1b95bd3eb976931870ee37069a02d5335c4ce0032adb",104   "language": "MATLAB",105   "lines": 133,106   "truncated": false,107   "block": 10,108   "row": 8680109  },110  {111   "path": "src/classes/ConnectomeFeatureAnalyzer.m",112   "sha256": "46ea171ff265daaff43952c988f26c49166bdddfd8c609a8eb7452aeef1c52e3",113   "language": "MATLAB",114   "lines": 29,115   "truncated": false,116   "block": 10,117   "row": 7067118  },119  {120   "path": "src/classes/ConnectomeGenePairDataSet.m",121   "sha256": "f0c81ba8332a59f0e061ea159e67678f1b4f473170b8fe1ed602d79e736dfe6e",122   "language": "MATLAB",123   "lines": 65,124   "truncated": false,125   "block": 10,126   "row": 7981127  },128  {129   "path": "src/classes/ConnectomeRandomizationMethods.m",130   "sha256": "4218bea89fc9299b4d815bf53a2157e4826fb6f54f92a375db9cf795ffe73de3",131   "language": "MATLAB",132   "lines": 100,133   "truncated": false,134   "block": 10,135   "row": 8359136  },137  {138   "path": "src/classes/ConnectomeVisualizer.m",139   "sha256": "b3ec5c744e17c1a0fcee66e72edad2733e71f5d33281ceb544eb4fc59a1ec1de",140   "language": "MATLAB",141   "lines": 143,142   "truncated": false,143   "block": 10,144   "row": 8747145  },146  {147   "path": "src/classes/CrossRegionInformation.m",148   "sha256": "2206e41c08bbf43d4f4fcc377092d0ef712ba2e6687588f1c2a1902750744b25",149   "language": "MATLAB",150   "lines": 147,151   "truncated": false,152   "block": 10,153   "row": 8566154  },155  {156   "path": "src/classes/DistanceDistributionBins.m",157   "sha256": "5c4e810c7a742bba47394f1712dbd18271a5c4024a3b3584b6b25f1511d7b74b",158   "language": "MATLAB",159   "lines": 63,160   "truncated": false,161   "block": 10,162   "row": 7937163  },164  {165   "path": "src/classes/DistributionBinContents.m",166   "sha256": "651aa53febe31959227f6b1f0d0557fbb312a19a03eff11835b4bc54406ad1f7",167   "language": "MATLAB",168   "lines": 25,169   "truncated": false,170   "block": 10,171   "row": 6978172  },173  {174   "path": "src/classes/FigMaker.m",175   "sha256": "a3db13b02ed82d225ff080546e0461fabb7e67137085b3c0836f4228293c57fc",176   "language": "MATLAB",177   "lines": 1281,178   "truncated": false,179   "block": 10,180   "row": 9373181  },182  {183   "path": "src/classes/GeneExpressionLevels.m",184   "sha256": "e8907474ba81acc740a7937029d90c7dff2d6e08b21d9534cccb3495f8dd0d2c",185   "language": "MATLAB",186   "lines": 78,187   "truncated": false,188   "block": 10,189   "row": 8034190  },191  {192   "path": "src/classes/GeneInformation.m",193   "sha256": "998e1ac62a5c5ec9349baadb7f975e08bc36e615b4db56b29c90b765df4fea87",194   "language": "MATLAB",195   "lines": 55,196   "truncated": false,197   "block": 10,198   "row": 7459199  },200  {201   "path": "src/classes/HoldoutAnalysisUnit.m",202   "sha256": "e796ca2c24701e11f7c09f2963a8cae9fa2a5f1f788dd92e696e708670521946",203   "language": "MATLAB",204   "lines": 60,205   "truncated": false,206   "block": 10,207   "row": 7883208  },209  {210   "path": "src/classes/HoldoutParameters.m",211   "sha256": "35bef08d72d6aeed79505bf74c77628382a9d26c6c9e0839fc4900bb7fd954c7",212   "language": "MATLAB",213   "lines": 20,214   "truncated": false,215   "block": 10,216   "row": 6598217  },218  {219   "path": "src/classes/HoldoutResultsSummary.m",220   "sha256": "5a1438e5c8399fcc2423a0006e288eaf4dd90c15613cff4d2b6dc5442762d901",221   "language": "MATLAB",222   "lines": 52,223   "truncated": false,224   "block": 10,225   "row": 7674226  },227  {228   "path": "src/classes/HoldoutSplit.m",229   "sha256": "6db150e790bfea3dda768a113d998554bd0a1e98cdb880a8aaa91ac503d6235f",230   "language": "MATLAB",231   "lines": 41,232   "truncated": false,233   "block": 10,234   "row": 7352235  },236  {237   "path": "src/classes/HoldoutTestMetrics.m",238   "sha256": "94e733e287b73aec2930a00761b613031c5bc706574bc8fc1c719f75f4cba3ac",239   "language": "MATLAB",240   "lines": 51,241   "truncated": false,242   "block": 10,243   "row": 7828244  },245  {246   "path": "src/classes/MajorRegionBlockRandomizer.m",247   "sha256": "6d7182df103d030805211abd2e8ff6dddcfd7e82ba682127f0853816c28038e1",248   "language": "MATLAB",249   "lines": 78,250   "truncated": false,251   "block": 10,252   "row": 8318253  },254  {255   "path": "src/classes/NullConnectomeGeneratorModel.m",256   "sha256": "67c9a562b2c47aa62b738c6f105e20b7dd69e98650a3956642d3b894256e0279",257   "language": "MATLAB",258   "lines": 38,259   "truncated": false,260   "block": 10,261   "row": 7450262  },263  {264   "path": "src/classes/NullModelAnalysisBatchRunner.m",265   "sha256": "84385e24a08116bdeaaafd5c04e3e302a948ba4d7c971452961d4d5e027be839",266   "language": "MATLAB",267   "lines": 143,268   "truncated": false,269   "block": 10,270   "row": 8792271  },272  {273   "path": "src/classes/NullModelAnalysisUnit.m",274   "sha256": "aaadc75a9ff6511967a12676098672fb665be0ec84fb862d5ce0c0d2ce26197a",275   "language": "MATLAB",276   "lines": 95,277   "truncated": false,278   "block": 10,279   "row": 8272280  },281  {282   "path": "src/classes/NullModelAnalysisUnit_GeneSurrogate.m",283   "sha256": "0cafb9c2547772c591c9014d8c56d52f8a770fc207762f6f3571a79965f8da65",284   "language": "MATLAB",285   "lines": 101,286   "truncated": false,287   "block": 10,288   "row": 8365289  },290  {291   "path": "src/classes/OverallAnalysisGroup.m",292   "sha256": "b918e4e9a3f29fde22ca1bfd0ccf49d169a714a9b9d10df70450699d1015da49",293   "language": "MATLAB",294   "lines": 155,295   "truncated": false,296   "block": 10,297   "row": 8692298  },299  {300   "path": "src/classes/PCAResults.m",301   "sha256": "a23dc3a7f5b7feb205ce323efa8ee20b61ab25644e0f52b68117e45383e0c600",302   "language": "MATLAB",303   "lines": 52,304   "truncated": false,305   "block": 10,306   "row": 7514307  },308  {309   "path": "src/classes/PairDataCCAAnalysisModel.m",310   "sha256": "97ec3a2f6fc0f449c5b7a93a60cecbdbadcedf17603956dac52c1a9eea38a9f2",311   "language": "MATLAB",312   "lines": 77,313   "truncated": false,314   "block": 10,315   "row": 8150316  },317  {318   "path": "src/classes/PairDataCCAResultsVisualizer.m",319   "sha256": "eef60bb2f3da21d38cbe824d7a4527baa096a0c7905933a4aa17f8178c8863b6",320   "language": "MATLAB",321   "lines": 182,322   "truncated": false,323   "block": 10,324   "row": 8858325  },326  {327   "path": "src/classes/PairDataGenerationOptions.m",328   "sha256": "03d2b21bc0db75486df096b7adf30b5fd51396f08b76d6a14617802f13da1a52",329   "language": "MATLAB",330   "lines": 28,331   "truncated": false,332   "block": 10,333   "row": 6856334  },335  {336   "path": "src/classes/RandomConnectomeTestVisualizer.m",337   "sha256": "1e954c887ded7433823b613cc68eba362e821222df0c47af7dd1413c27413c93",338   "language": "MATLAB",339   "lines": 238,340   "truncated": false,341   "block": 10,342   "row": 9027343  },344  {345   "path": "src/classes/ReconstructionParameters.m",346   "sha256": "6b172e966429fea28a48302efd272005d13a016778ff382e2dce43cd2d855656",347   "language": "MATLAB",348   "lines": 23,349   "truncated": false,350   "block": 10,351   "row": 6628352  },353  {354   "path": "src/classes/ReconstructionResults.m",355   "sha256": "d150cabfed9cce50e84351f9a9a9549f7c7bbfadcc1f5b2ebe0cf9084e36fa8e",356   "language": "MATLAB",357   "lines": 229,358   "truncated": false,359   "block": 10,360   "row": 8905361  },362  {363   "path": "src/classes/RelatedGeneAnalysisResults.m",364   "sha256": "a33b62c6d81f427e109e70d70e4218125a9ef5c77bd188f96a2ce72ffa3b84d8",365   "language": "MATLAB",366   "lines": 206,367   "truncated": false,368   "block": 10,369   "row": 8952370  },371  {372   "path": "src/classes/SpatialAutocorrelationCalculator.m",373   "sha256": "3f69c88f5f9a13ccba8d6921f25b942956fe1dcdac00d1f26d163369b227ad3b",374   "language": "MATLAB",375   "lines": 146,376   "truncated": false,377   "block": 10,378   "row": 8640379  },380  {381   "path": "src/classes/WiringPIPairs.m",382   "sha256": "dc03e79614f1eb1079cfccedbf2d812f3277cbb0baad6e29b9e7cfdc73a112b7",383   "language": "MATLAB",384   "lines": 51,385   "truncated": false,386   "block": 10,387   "row": 7595388  },389  {390   "path": "src/main/main_additional_analysis.m",391   "sha256": "446a398d1837781b8ff74e5536a9910e60e8ecc873a0049e0b06d9f61884de3f",392   "language": "MATLAB",393   "lines": 63,394   "truncated": false,395   "block": 10,396   "row": 8169397  },398  {399   "path": "src/main/main_data_preparation.m",400   "sha256": "8875438bc5bcbec1227181e13841792fd8b77d986208f48041befdc8e6ec6976",401   "language": "MATLAB",402   "lines": 17,403   "truncated": false,404   "block": 10,405   "row": 7042406  },407  {408   "path": "src/main/main_demonstration.m",409   "sha256": "06b67c28f868589bccc017263033c86c788f920aca724242aa2d7e52f4e78ffa",410   "language": "MATLAB",411   "lines": 58,412   "truncated": false,413   "block": 10,414   "row": 8062415  },416  {417   "path": "src/main/main_for_gene_analysis.m",418   "sha256": "3e494aacb8421d02f78761474d9399a4abb315331b95f15f5e0d72a6dcc0bec4",419   "language": "MATLAB",420   "lines": 114,421   "truncated": false,422   "block": 10,423   "row": 8179424  },425  {426   "path": "src/main/main_gene_surrogate.m",427   "sha256": "d01adbe1badbadfa3247b122dfb547043f31988fbf127a3267c9e1c301570614",428   "language": "MATLAB",429   "lines": 107,430   "truncated": false,431   "block": 10,432   "row": 8147433  },434  {435   "path": "src/main/main_import_processed_data.m",436   "sha256": "7456e8f19eb79918f63fa353ffb89b0818111ed1c1703d112e22477c63237769",437   "language": "MATLAB",438   "lines": 40,439   "truncated": false,440   "block": 10,441   "row": 7433442  },443  {444   "path": "src/main/main_makeAllFigures.m",445   "sha256": "2b8ad395326d5baeb7a65cef488cb8ac5e05a166413a0ffb1847d0343a0a0d5c",446   "language": "MATLAB",447   "lines": 354,448   "truncated": false,449   "block": 10,450   "row": 9064451  },452  {453   "path": "src/main/main_parameter_setting.m",454   "sha256": "bfb46303f6be4be86a498dea1c191b4568cedacebdd565ca96135fc77ef6d2cb",455   "language": "MATLAB",456   "lines": 27,457   "truncated": false,458   "block": 10,459   "row": 7327460  },461  {462   "path": "src/main/script_connectomeDataAnalysis_template.m",463   "sha256": "986ffc0f5441739cf35b0ac5ed1aba54a44a2aa703b8ff56079c9f9ef6eecffb",464   "language": "MATLAB",465   "lines": 69,466   "truncated": false,467   "block": 10,468   "row": 8256469  },470  {471   "path": "src/main/test_main_script.m",472   "sha256": "7fd4cb47bb12aa6c8f8e4e451d4ef19944f95d17b82d9658daaf4d68f44a716a",473   "language": "MATLAB",474   "lines": 46,475   "truncated": false,476   "block": 10,477   "row": 7911478  },479  {480   "path": "src/preprpcessing/data_processing/extractChildrenIdListTxtFromIDAndPath.m",481   "sha256": "41766a15cfa199ff80b17c5bc69b00e9f27ce36cbd2e5b7fa38583076d2e376c",482   "language": "MATLAB",483   "lines": 49,484   "truncated": false,485   "block": 10,486   "row": 7315487  },488  {489   "path": "src/preprpcessing/data_processing/extractChildrenIdListTxtFromPath.m",490   "sha256": "135d8051dc18fa8d07643e13db6487946fb5f17c779abc9b61455362989ee09b",491   "language": "MATLAB",492   "lines": 36,493   "truncated": false,494   "block": 10,495   "row": 6918496  },497  {498   "path": "src/preprpcessing/data_processing/extractDevelopingAdultIntersectingGenes.m",499   "sha256": "fd12ad0ca5e2338ae4db55e0dea98807975271e0fd3c73e1d7d2d2070ac3ac59",500   "language": "MATLAB",501   "lines": 30,502   "truncated": false,503   "block": 10,504   "row": 7299505  },506  {507   "path": "src/preprpcessing/data_processing/extractUpstreamID.m",508   "sha256": "4bdbfaf8c6681f5a26fa5444efccdf3ac958ee7c6caea6994e45698c6b26cbfb",509   "language": "MATLAB",510   "lines": 9,511   "truncated": false,512   "block": 10,513   "row": 6318514  },515  {516   "path": "src/preprpcessing/data_processing/modify3DAnnotationOrder.m",517   "sha256": "9a6c319e8cc5fe0deb7ebcc34a633311a8011387f8caa81531a097baaa64cf2b",518   "language": "MATLAB",519   "lines": 30,520   "truncated": false,521   "block": 10,522   "row": 7358523  },524  {525   "path": "src/preprpcessing/gene_surrogate/.ipynb_checkpoints/Untitled-checkpoint.ipynb",526   "sha256": "01ba4719c80b6fe911b091a7c05124b64eeece964e09c058ef8f9805daca546b",527   "language": "Jupyter",528   "lines": 1,529   "truncated": false,530   "block": 1,531   "row": 4956532  },533  {534   "path": "src/preprpcessing/gene_surrogate/.ipynb_checkpoints/surrogate-checkpoint.ipynb",535   "sha256": "6ad856809339ceefb14d31b15e8f1ca22011121ace541ba66833431b21a1a78c",536   "language": "Jupyter",537   "lines": 36,538   "truncated": false,539   "block": 10,540   "row": 4897541  },542  {543   "path": "src/preprpcessing/gene_surrogate/surrogate.ipynb",544   "sha256": "6ad856809339ceefb14d31b15e8f1ca22011121ace541ba66833431b21a1a78c",545   "language": "Jupyter",546   "lines": 36,547   "truncated": false,548   "block": 10,549   "row": 4897550  },551  {552   "path": "src/utils/createFigureParser.m",553   "sha256": "0f1509adfe6c69267d08e19ef5853c64c9f990f0c8f281d441b93c6e60eedb54",554   "language": "MATLAB",555   "lines": 13,556   "truncated": false,557   "block": 10,558   "row": 6512559  },560  {561   "path": "src/utils/empiricalPvalue_abs.m",562   "sha256": "32a01a453e0d5d1dfbb4116886d4a9beef6ee1c820b591a23288f3c53527f467",563   "language": "MATLAB",564   "lines": 14,565   "truncated": false,566   "block": 10,567   "row": 6420568  },569  {570   "path": "src/utils/fdr_bh.m",571   "sha256": "66f52f50903de1c4fac8cdfc21aac411fda5d92864fc6d62683b2da763a35d74",572   "language": "MATLAB",573   "lines": 14,574   "truncated": false,575   "block": 10,576   "row": 6412577  },578  {579   "path": "src/utils/getOrCreateAxes.m",580   "sha256": "dd6d1ded5484e7b37550992bb9df34bd36534022c44f089410a2fdba44463c47",581   "language": "MATLAB",582   "lines": 18,583   "truncated": false,584   "block": 10,585   "row": 6662586  },587  {588   "path": "src/utils/makeLegendsByDummyPlot.m",589   "sha256": "8a03e2fe6f94875fdcddbcd15db6e5dc5fa512c4cd06b1e69478f8ef60963733",590   "language": "MATLAB",591   "lines": 27,592   "truncated": false,593   "block": 10,594   "row": 6785595  },596  {597   "path": "src/utils/redblue_cp.m",598   "sha256": "b132ca76b9b1dbcd4659634279e5de514ab7cc922da377103f239e0a409f0fde",599   "language": "MATLAB",600   "lines": 39,601   "truncated": false,602   "block": 10,603   "row": 7064604  },605  {606   "path": "src/utils/shuffledIndexByCategory.m",607   "sha256": "6178800ce83e6ee43709ade34cf879004cb7f62876ead51f76765fd1fbe716c6",608   "language": "MATLAB",609   "lines": 24,610   "truncated": false,611   "block": 10,612   "row": 6770613  },614  {615   "path": "startup_SPERRFY.m",616   "sha256": "7f3227d759b5a44aba72d2c23f57f44fdf19ca7be4ea9803d33f77cbffb993a2",617   "language": "MATLAB",618   "lines": 5,619   "truncated": false,620   "block": 10,621   "row": 6307622  }623 ]624}