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__theislab__scib-pipeline.json246 linesDownload Raw Back to 6c
1{2 "format": "oscr-script-manifest/1",3 "repository": "github.com/theislab/scib-pipeline",4 "url": "https://github.com/theislab/scib-pipeline",5 "host": "github.com",6 "commit": "e97631a478e063883cee5db0dcebbf42d8268ab0",7 "license": "MIT",8 "license_confirmed_by": "license file LICENSE.txt",9 "redistribution": "yes",10 "files": [11  {12   "path": "LICENSE.txt",13   "sha256": "75ba2679409f41207d04e5ba23ce189199411444be2aaf51dd3a1f114668c107",14   "language": "License",15   "lines": 17,16   "truncated": false,17   "block": 20,18   "row": 860319  },20  {21   "path": "README.md",22   "sha256": "dee18bad9caa1138c040c917764b0a281cc3ac4df935ee1cefdbb40d202c9405",23   "language": "Text",24   "lines": 140,25   "truncated": false,26   "block": 21,27   "row": 317628  },29  {30   "path": "ScibConfig.py",31   "sha256": "9e3604dce8ef5fcbf1969cf0be61de1cb396455fa337bbc1ef22cbd1f4613886",32   "language": "Python",33   "lines": 201,34   "truncated": false,35   "block": 20,36   "row": 1963437  },38  {39   "path": "data/generate_data.py",40   "sha256": "c3228dd280da52a59ca6d3c2e8cbc7bcf7c0185765151098560a233c66783d8e",41   "language": "Python",42   "lines": 88,43   "truncated": false,44   "block": 20,45   "row": 1640146  },47  {48   "path": "envs/create_conda_environments.sh",49   "sha256": "0d582a62dcd1a2c7a2dce7b59944793f85de300700d1d292035f71e165ba79b2",50   "language": "Shell",51   "lines": 98,52   "truncated": false,53   "block": 21,54   "row": 247055  },56  {57   "path": "envs/env_vars_activate.sh",58   "sha256": "72aa295d4b3bbbf766717b5fc53b0156b3d3e7c9e3c7cc7d68a3b4e235f8c201",59   "language": "Shell",60   "lines": 33,61   "truncated": false,62   "block": 21,63   "row": 211964  },65  {66   "path": "envs/env_vars_deactivate.sh",67   "sha256": "64e6f7dd847dcf7e591cdc08c859d45282a13a62f7259c992437cc37dca8dccc",68   "language": "Shell",69   "lines": 28,70   "truncated": false,71   "block": 21,72   "row": 198073  },74  {75   "path": "envs/install_R_methods.R",76   "sha256": "55b0aa6f5093b9f786945cb0a2884db943efffcdb7aa4c15b7a684bed19b6e8d",77   "language": "R",78   "lines": 73,79   "truncated": false,80   "block": 21,81   "row": 80082  },83  {84   "path": "envs/set_vars.sh",85   "sha256": "1ef52e4c8a06505d25141e9b206d5df310206559557a702daa3b9b0abeb0b653",86   "language": "Shell",87   "lines": 25,88   "truncated": false,89   "block": 21,90   "row": 208491  },92  {93   "path": "sanity_check/metrics_compare.R",94   "sha256": "c364fc0980a7d5161862c0d33f18f2738fe1dee9408d2ca6bbaf2431a4923ec0",95   "language": "R",96   "lines": 67,97   "truncated": false,98   "block": 21,99   "row": 764100  },101  {102   "path": "scripts/integration/integration.R",103   "sha256": "b12c2536de493da439296023028765e3c5d2dbdfdd0db4f704b9eb0a5d640fb3",104   "language": "R",105   "lines": 223,106   "truncated": false,107   "block": 21,108   "row": 1114109  },110  {111   "path": "scripts/integration/runIntegration.py",112   "sha256": "54c5a76075e253b1b086632407714ecefeee21cca1ee89dbc0ebdc16dfd83901",113   "language": "Python",114   "lines": 67,115   "truncated": false,116   "block": 20,117   "row": 15666118  },119  {120   "path": "scripts/integration/runMethods.R",121   "sha256": "901c8d1b262586da092a073f0e6224d6d2e2543042ffdc8b4c3cbd0448920310",122   "language": "R",123   "lines": 90,124   "truncated": false,125   "block": 21,126   "row": 833127  },128  {129   "path": "scripts/integration/runPost.py",130   "sha256": "69f0f557eb3bbe34332ccfeba076134f237c6dd2b5b3846a83e160f711542498",131   "language": "Python",132   "lines": 40,133   "truncated": false,134   "block": 20,135   "row": 14080136  },137  {138   "path": "scripts/integration_fail_file.py",139   "sha256": "bc7066c6b6430157d6765d5a146c2654bba3699a895ab43cd5656279f3be57df",140   "language": "Python",141   "lines": 53,142   "truncated": false,143   "block": 20,144   "row": 15529145  },146  {147   "path": "scripts/merge_benchmarks.py",148   "sha256": "733ea9dfb44548ec171253f45a9b45e5177d83c52b30b79b62524ee0283e0b54",149   "language": "Python",150   "lines": 44,151   "truncated": false,152   "block": 20,153   "row": 14888154  },155  {156   "path": "scripts/metrics/merge_metrics.py",157   "sha256": "b8f1dd0c425f41a02ef5852be8cc269987ff67c3c054673b7edf4ca2fe153916",158   "language": "Python",159   "lines": 33,160   "truncated": false,161   "block": 20,162   "row": 14338163  },164  {165   "path": "scripts/metrics/metrics.py",166   "sha256": "81d9d3b358a48b9fccc5fc4c15f7bb486295636cdeaa73fdad1f635cee0e02a9",167   "language": "Python",168   "lines": 272,169   "truncated": false,170   "block": 20,171   "row": 19780172  },173  {174   "path": "scripts/precompute_conn.py",175   "sha256": "43db07aeb932f88866608851905fa8a30e10a164d9b2a13ec5ff630ccf6b5ea7",176   "language": "Python",177   "lines": 62,178   "truncated": false,179   "block": 20,180   "row": 15603181  },182  {183   "path": "scripts/preprocessing/runPP.py",184   "sha256": "95ccb5332f17e37039e8a8d4959830aacd4b31855ea080ef1c3828ba9730be73",185   "language": "Python",186   "lines": 80,187   "truncated": false,188   "block": 20,189   "row": 16110190  },191  {192   "path": "scripts/update_timestamp.py",193   "sha256": "47c855b141db354d8d72f4a8b30e0a6034132fe820a9aa1e07f53dfce99ca788",194   "language": "Python",195   "lines": 110,196   "truncated": false,197   "block": 20,198   "row": 17547199  },200  {201   "path": "scripts/visualization/save_embeddings.py",202   "sha256": "a643b85082e4abc67afb7e9628bb2e82fddfa1e8d31a1276574e313ea3e9f63c",203   "language": "Python",204   "lines": 113,205   "truncated": false,206   "block": 20,207   "row": 17239208  },209  {210   "path": "tests/common.py",211   "sha256": "78e4098cee8c50a64f67a14c3d84c7574c4ba2eba6bbe970fe3f9a39c8479b0e",212   "language": "Python",213   "lines": 40,214   "truncated": false,215   "block": 20,216   "row": 14121217  },218  {219   "path": "tests/conftest.py",220   "sha256": "f88184c9c088b894e2e56a15fe27ca0f4387b1d954ab873abe588666267aa43f",221   "language": "Python",222   "lines": 79,223   "truncated": false,224   "block": 20,225   "row": 16203226  },227  {228   "path": "tests/pipeline/test_metrics.py",229   "sha256": "5f43d86f9a15484777ec2b6b79f717edda0494747c6a2f8c54a0520415b1a1a1",230   "language": "Python",231   "lines": 78,232   "truncated": false,233   "block": 20,234   "row": 15956235  },236  {237   "path": "tests/pipeline/test_pipeline.py",238   "sha256": "0d2daf75a2955fac270164b82ca86facd1e5a3c7029163139859e055b2900c59",239   "language": "Python",240   "lines": 96,241   "truncated": false,242   "block": 20,243   "row": 16489244  }245 ]246}