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/hzlab/2024_cheng_longitudinal_brain_age",4 "url": "https://github.com/hzlab/2024_Cheng_Longitudinal_Brain_Age",5 "host": "github.com",6 "commit": "fb62bcd73f2cee4fdd8cf53b2addc1fc25be76b1",7 "license": "MIT",8 "license_confirmed_by": "license file LICENSE",9 "redistribution": "yes",10 "files": [11 {12 "path": "LICENSE",13 "sha256": "9c103b3454e783020376188af0a4ace8bd2dcd287b03a2a3518863d58b2e28fe",14 "language": "License",15 "lines": 21,16 "truncated": false,17 "block": 22,18 "row": 1411019 },20 {21 "path": "README.md",22 "sha256": "63d829c45b9f76de2de521579ae821ed415131e5a3b02ad1681b71206709defa",23 "language": "Text",24 "lines": 267,25 "truncated": false,26 "block": 24,27 "row": 94028 },29 {30 "path": "pyment-public/pyment/callbacks/__init__.py",31 "sha256": "25b1045be9546a224c4f097edf2d6a529e54db8a8d18c4be27d7b8d0b3f1c1ad",32 "language": "Python",33 "lines": 1,34 "truncated": false,35 "block": 22,36 "row": 2545837 },38 {39 "path": "pyment-public/pyment/callbacks/resetter.py",40 "sha256": "6cbeca845917ef952b87ce327df4ce8e6bc2e883ffa1a723a4dfc0abaaec8433",41 "language": "Python",42 "lines": 25,43 "truncated": false,44 "block": 22,45 "row": 2748946 },47 {48 "path": "pyment-public/pyment/data/__init__.py",49 "sha256": "5c452e868534d0761a9516b0c8a41c8decfdd0c592e910c7fd89e9db8303cd13",50 "language": "Python",51 "lines": 3,52 "truncated": false,53 "block": 22,54 "row": 2575255 },56 {57 "path": "pyment-public/pyment/data/datasets/__init__.py",58 "sha256": "0dd07e3b2039c299d2d5aaf127ac9d12aa47dfb9221e54a6190b45097831134b",59 "language": "Python",60 "lines": 2,61 "truncated": false,62 "block": 22,63 "row": 2554864 },65 {66 "path": "pyment-public/pyment/data/datasets/dataset.py",67 "sha256": "78f61a46a1ecb7aaf924d001b6e90e8d3643967d365207a4753b95d0425f46cf",68 "language": "Python",69 "lines": 15,70 "truncated": false,71 "block": 22,72 "row": 2651873 },74 {75 "path": "pyment-public/pyment/data/datasets/nifti_dataset.py",76 "sha256": "f96a406cfd3234259e7f529b4b43984fca0ff69437909b6a2baeb9122eebc3ae",77 "language": "Python",78 "lines": 132,79 "truncated": false,80 "block": 23,81 "row": 473282 },83 {84 "path": "pyment-public/pyment/data/generators/__init__.py",85 "sha256": "c0e66a93eb504c8144b58ffb3120c8e5308be4ca219c7b62e901174915e3ec24",86 "language": "Python",87 "lines": 2,88 "truncated": false,89 "block": 22,90 "row": 2564491 },92 {93 "path": "pyment-public/pyment/data/generators/async_nifti_generator.py",94 "sha256": "5c68d059cb72e492067ec83c8e483d5c8db5c9361f1c1f122a465d09e61c069d",95 "language": "Python",96 "lines": 107,97 "truncated": false,98 "block": 23,99 "row": 3747100 },101 {102 "path": "pyment-public/pyment/data/generators/nifti_generator.py",103 "sha256": "f7b6f482391345a6738a4e8500868ac5396cb1ca36f45ebfee601330e43623b6",104 "language": "Python",105 "lines": 123,106 "truncated": false,107 "block": 23,108 "row": 4533109 },110 {111 "path": "pyment-public/pyment/data/io/__init__.py",112 "sha256": "2c232a7facdbdc7f2450fe32178d0432c9981dd6ce182a662d364ca77a5e1c9e",113 "language": "Python",114 "lines": 1,115 "truncated": false,116 "block": 22,117 "row": 25434118 },119 {120 "path": "pyment-public/pyment/data/io/nifti_loader.py",121 "sha256": "260cffee79d8d892981ad7d319d9f261b4c482999c9e61614de87f20198df70b",122 "language": "Python",123 "lines": 13,124 "truncated": false,125 "block": 22,126 "row": 26458127 },128 {129 "path": "pyment-public/pyment/models/__init__.py",130 "sha256": "53d60191d3f60e5b7ef7e3acf9ef84648fa5cf0cdbda711e956508ef426dd3e4",131 "language": "Python",132 "lines": 15,133 "truncated": false,134 "block": 22,135 "row": 27621136 },137 {138 "path": "pyment-public/pyment/models/model.py",139 "sha256": "784119d6a6dca93b231afdc0909d200c321f4a08f47f5958edcea34e2d7ce2fa",140 "language": "Python",141 "lines": 57,142 "truncated": false,143 "block": 23,144 "row": 1131145 },146 {147 "path": "pyment-public/pyment/models/model_type.py",148 "sha256": "ef596d19202929a52c82fd1c7f113378dd122d46a8c392da6df766eec86e19a3",149 "language": "Python",150 "lines": 7,151 "truncated": false,152 "block": 22,153 "row": 25813154 },155 {156 "path": "pyment-public/pyment/models/ranking_sfcn.py",157 "sha256": "c406d0e6b03ec8802ded727a16edbfdc220b04c2dcfee3a61b69990af5e426f3",158 "language": "Python",159 "lines": 59,160 "truncated": false,161 "block": 23,162 "row": 2472163 },164 {165 "path": "pyment-public/pyment/models/regression_sfcn.py",166 "sha256": "76aaddcb8920e0360e197cb856a2f43d1ab737d67d16c3135f151510e8a39cd2",167 "language": "Python",168 "lines": 63,169 "truncated": false,170 "block": 23,171 "row": 2710172 },173 {174 "path": "pyment-public/pyment/models/soft_classification_sfcn.py",175 "sha256": "56dfcd26aa33f356c04fd3dfcef326ff97446b3c49bd2674d9ff050aaa577e02",176 "language": "Python",177 "lines": 60,178 "truncated": false,179 "block": 23,180 "row": 2528181 },182 {183 "path": "pyment-public/pyment/models/utils/__init__.py",184 "sha256": "642e5e5a4df1993fdb4f31a38769346fa3a79e06ac85495bcaffb515c813970b",185 "language": "Python",186 "lines": 2,187 "truncated": false,188 "block": 22,189 "row": 25617190 },191 {192 "path": "pyment-public/pyment/models/utils/restrict_range.py",193 "sha256": "0ae5583c23f654aecac1e4b2c1577b95c7c7d311f209de6861468d6ce6d3d27a",194 "language": "Python",195 "lines": 13,196 "truncated": false,197 "block": 22,198 "row": 26685199 },200 {201 "path": "pyment-public/pyment/models/utils/weight_repository.py",202 "sha256": "7f6b1d9694b20d1ed8203a8514bfbb48933b3c04d091f69bf375d1f5fdec9efd",203 "language": "Python",204 "lines": 62,205 "truncated": false,206 "block": 23,207 "row": 2030208 },209 {210 "path": "pyment-public/pyment/utils/__init__.py",211 "sha256": "3b85aa64c9593ef4316b2bf4600eaa9f2e0c7225e61827c86106f8cafd3cd138",212 "language": "Python",213 "lines": 1,214 "truncated": false,215 "block": 22,216 "row": 25399217 },218 {219 "path": "pyment-public/pyment/utils/download.py",220 "sha256": "23885a548b748e1e490cf23628fd231cf8c18d85b34b3e1c4c8565b55f35cf8f",221 "language": "Python",222 "lines": 27,223 "truncated": false,224 "block": 22,225 "row": 28397226 },227 {228 "path": "pyment-public/pyment/utils/preprocessing/__init__.py",229 "sha256": "a86e212210ccee8c5f433fbb172ff41c52fcc767fd41b4b57269cb3b02b0a4c3",230 "language": "Python",231 "lines": 6,232 "truncated": false,233 "block": 22,234 "row": 26467235 },236 {237 "path": "pyment-public/pyment/utils/preprocessing/crop.py",238 "sha256": "07345ab6e63cfd0cdc0e081fff0dfa2975c8006fc77f9b2e8e92fd9ad218bb7e",239 "language": "Python",240 "lines": 63,241 "truncated": false,242 "block": 23,243 "row": 1169244 },245 {246 "path": "pyment-public/pyment/utils/preprocessing/freesurfer.py",247 "sha256": "5b4f711197047bb5fca6ad4341f39d3f606859e908f1391767344c7cfc867c21",248 "language": "Python",249 "lines": 103,250 "truncated": false,251 "block": 23,252 "row": 3310253 },254 {255 "path": "pyment-public/pyment/utils/preprocessing/fsl.py",256 "sha256": "40f87a7d844c056a9020ecc04a9d99da0abbf6adb3e648f500e801f5bba2bf16",257 "language": "Python",258 "lines": 58,259 "truncated": false,260 "block": 23,261 "row": 714262 },263 {264 "path": "pyment-public/pyment/utils/preprocessing/utils.py",265 "sha256": "4dcc0dd6d116f0f2d40e52d341f39de3a2212ace12756b8d2ea5ac1cff9c9722",266 "language": "Python",267 "lines": 38,268 "truncated": false,269 "block": 22,270 "row": 29263271 },272 {273 "path": "pyment-public/scripts/predict_brain_age.py",274 "sha256": "f8dc722e4d06f62ca8913aa17dc8f747695f5fb777c43f4b651bc20e909c2745",275 "language": "Python",276 "lines": 70,277 "truncated": false,278 "block": 23,279 "row": 3805280 },281 {282 "path": "pyment-public/scripts/preprocess_and_predict_brain_age.py",283 "sha256": "2b2a27cffd3ef264d7c13f22034fad3f79f65e23e80677aecb23f3ad49498a2b",284 "language": "Python",285 "lines": 142,286 "truncated": false,287 "block": 23,288 "row": 8787289 },290 {291 "path": "pyment-public/setup.py",292 "sha256": "abc932ac6c9f765d38c09408058687f24eacbecda15c97f27844b61354d25577",293 "language": "Python",294 "lines": 9,295 "truncated": false,296 "block": 22,297 "row": 26500298 },299 {300 "path": "pyment-public/tests/conftest.py",301 "sha256": "966f75977bb9da76295a5202244fac7109a6f035f0bcf1c2994e1e5cf592ffd4",302 "language": "Python",303 "lines": 8,304 "truncated": false,305 "block": 22,306 "row": 26024307 },308 {309 "path": "pyment-public/tests/test_get_model.py",310 "sha256": "4da10a59570231a0057288b1d2a71859eac3d71d823a059125f02d24ce1964ef",311 "language": "Python",312 "lines": 55,313 "truncated": false,314 "block": 23,315 "row": 1947316 },317 {318 "path": "pyment-public/tests/test_nifti_dataset.py",319 "sha256": "2fc2d7ff0350457743584b64f3f1279a98ec27b120fd112aff0167330ec16728",320 "language": "Python",321 "lines": 95,322 "truncated": false,323 "block": 23,324 "row": 3489325 },326 {327 "path": "pyment-public/tests/test_preprocessing_crop.py",328 "sha256": "e1b4d07a5207e913beffb692a916b2ff70647b5a323bd81d5043e60ba4f29793",329 "language": "Python",330 "lines": 93,331 "truncated": false,332 "block": 23,333 "row": 2063334 },335 {336 "path": "pyment-public/tests/test_preprocessing_freesurfer.py",337 "sha256": "e89b1d99c820678fd609b9a54942792786abb26a0eef7c03382cc539b24dc3ad",338 "language": "Python",339 "lines": 117,340 "truncated": false,341 "block": 23,342 "row": 5236343 },344 {345 "path": "pyment-public/tests/test_preprocessing_fsl.py",346 "sha256": "929fa59a8e696670d374d4fe65693c2b8edd9620c5ebcfc5562215000166f9b1",347 "language": "Python",348 "lines": 109,349 "truncated": false,350 "block": 23,351 "row": 4843352 },353 {354 "path": "pyment-public/tests/test_resetter.py",355 "sha256": "d84966f0fe8a8b09ac1c3f80f7c0099d9a641920bf0ec4c8741e98647c263c8d",356 "language": "Python",357 "lines": 29,358 "truncated": false,359 "block": 22,360 "row": 27872361 },362 {363 "path": "pyment-public/tests/test_restrict_range.py",364 "sha256": "c3e28c21aaaeab9fbd81b8039fee8c3bed94eaf30fa4d3cb2e9ebdd5ccc52ea8",365 "language": "Python",366 "lines": 15,367 "truncated": false,368 "block": 22,369 "row": 27056370 },371 {372 "path": "pyment-public/tests/test_weight_repository.py",373 "sha256": "4e74ebfccdfe043233d97038028c4ff0745de0e8f916a645e897639c9c313e21",374 "language": "Python",375 "lines": 43,376 "truncated": false,377 "block": 23,378 "row": 257379 },380 {381 "path": "scripts/analysis/ADNI.R",382 "sha256": "33a8204f5d7f49c509fa140a5e60560fa461932e34e0e7f7b1756201739316ce",383 "language": "R",384 "lines": 123,385 "truncated": false,386 "block": 23,387 "row": 16021388 },389 {390 "path": "scripts/analysis/EDIS.R",391 "sha256": "964deb611d75d4b33029d928fc6945f50f61fbb394f8dac605056dce0704bc78",392 "language": "R",393 "lines": 93,394 "truncated": false,395 "block": 23,396 "row": 15854397 },398 {399 "path": "scripts/analysis/GUSTO.R",400 "sha256": "904670943bdc6bbb298e33415a43ba1ac37893f8507e3cff76d00a5d6dd0a731",401 "language": "R",402 "lines": 134,403 "truncated": false,404 "block": 23,405 "row": 16055406 },407 {408 "path": "scripts/analysis/SLABS.R",409 "sha256": "face2e3ee833d69dc0068882a390cd9ee8983aee9b5d5a49b97b4c735e731ce5",410 "language": "R",411 "lines": 181,412 "truncated": false,413 "block": 23,414 "row": 16177415 },416 {417 "path": "scripts/analysis/Study.R",418 "sha256": "995cc8d02b15cec076fbab35ca2967ae302f37ee1a10b8498e922f305802c85f",419 "language": "R",420 "lines": 124,421 "truncated": false,422 "block": 23,423 "row": 15962424 },425 {426 "path": "scripts/analysis/install.R",427 "sha256": "662b66f6b22ae9d53b1b3ba5ce0f203bd1a697a7ef0cd8492441e4af7092e22d",428 "language": "R",429 "lines": 7,430 "truncated": false,431 "block": 23,432 "row": 15445433 },434 {435 "path": "scripts/analysis/main.R",436 "sha256": "9451d634394e1da4febf3ae5887c91bd201581b982eaf49d6ddc9ef1df0429ed",437 "language": "R",438 "lines": 19,439 "truncated": false,440 "block": 23,441 "row": 15542442 },443 {444 "path": "scripts/analysis/plot_all_cognitive_results.R",445 "sha256": "c4edde0e98c7685bc003edd426b10e24a5a721a61a9fee254faa15ab7cc65a69",446 "language": "R",447 "lines": 75,448 "truncated": false,449 "block": 23,450 "row": 15732451 },452 {453 "path": "scripts/analysis/plot_brain_age_predictions.Rmd",454 "sha256": "6987d13c2a0ad6ce822ac097e30c61b0e9d1f4c7d860e068fd4930f6fc802f2b",455 "language": "R",456 "lines": 54,457 "truncated": false,458 "block": 23,459 "row": 15594460 },461 {462 "path": "scripts/analysis/plot_cognitive_results.Rmd",463 "sha256": "8676dad66eea0b8cab44a4de15bb209896dda391666c0eeec0a943319780981f",464 "language": "R",465 "lines": 95,466 "truncated": false,467 "block": 23,468 "row": 15696469 },470 {471 "path": "scripts/analysis/run_all_cognitive_associations.R",472 "sha256": "12739cbc28e6f659873e5a5acb148d09ea4fdb7f9f558cfb7e6ade4e2b790093",473 "language": "R",474 "lines": 60,475 "truncated": false,476 "block": 23,477 "row": 15659478 },479 {480 "path": "scripts/analysis/run_cognitive_associations.Rmd",481 "sha256": "05c246a0ac3584ba12d04a57c7bc00d1c663df0b5309ef5f0a3c31ae26605f08",482 "language": "R",483 "lines": 97,484 "truncated": false,485 "block": 23,486 "row": 15728487 },488 {489 "path": "scripts/analysis/utils.R",490 "sha256": "ad491283294800f685d54a4d104d1b75437018f3d6ce786782c0e8c5718e5b98",491 "language": "R",492 "lines": 286,493 "truncated": false,494 "block": 23,495 "row": 16426496 },497 {498 "path": "scripts/interp/calculate_feature_contributions.py",499 "sha256": "634a7bf1612cc35e9ab9a1d98cff25e31f60351555bbb5367f4a57c197804461",500 "language": "Python",501 "lines": 195,502 "truncated": false,503 "block": 23,504 "row": 8918505 },506 {507 "path": "scripts/interp/display_map_slices.py",508 "sha256": "6f383ac49462afbd7418f259a3794fa589f76ab32e63f8dd8df259886a5e6a07",509 "language": "Python",510 "lines": 149,511 "truncated": false,512 "block": 23,513 "row": 6994514 },515 {516 "path": "scripts/interp/generate_maps.py",517 "sha256": "92dc2ff8ebac0b9d347ee59bd3305d15733b1664d52740f7ebc07ef4f0a1ce46",518 "language": "Python",519 "lines": 14,520 "truncated": false,521 "block": 22,522 "row": 27164523 },524 {525 "path": "scripts/interp/generate_maps_by_image.py",526 "sha256": "929643fda5c8ea88336f636becb6a083f99798a055eeda5a3c421128364f81e1",527 "language": "Python",528 "lines": 157,529 "truncated": false,530 "block": 23,531 "row": 6705532 },533 {534 "path": "scripts/interp/reg_maps_to_template.sh",535 "sha256": "025e662ce444231e634c1f1c7dbd55b85d6930cea0febf57192a85a94dc8926d",536 "language": "Shell",537 "lines": 34,538 "truncated": false,539 "block": 23,540 "row": 17834541 },542 {543 "path": "scripts/prediction/finetune_and_predict_brain_age.py",544 "sha256": "d7fd8b043d2d1a93e838a5add45a803917e61f9952446d24661d2d46452e36f2",545 "language": "Python",546 "lines": 304,547 "truncated": false,548 "block": 23,549 "row": 11072550 },551 {552 "path": "scripts/prediction/plot_cognitive_prediction_results.py",553 "sha256": "ae7d3e9e9f75c8791567d47c2d34b724328efe34e037cd321c3cb4ee4a4d9481",554 "language": "Python",555 "lines": 155,556 "truncated": false,557 "block": 23,558 "row": 6742559 },560 {561 "path": "scripts/prediction/plot_learning_curves.py",562 "sha256": "0631786b53e2541d40dbf316829d5458d3f439d422a0ca4de837ab8bc2a9a995",563 "language": "Python",564 "lines": 38,565 "truncated": false,566 "block": 22,567 "row": 29231568 },569 {570 "path": "scripts/prediction/predict_cognition_from_brain_age.py",571 "sha256": "64c18d0b2140f6e7c51a495ec70dc2f6efd1d7b9d86a272f5b9f3f99f25111f8",572 "language": "Python",573 "lines": 176,574 "truncated": false,575 "block": 23,576 "row": 8100577 },578 {579 "path": "scripts/prediction/search_hyperparameters.py",580 "sha256": "f22f1a7499c20eb1950f2fcfc0c01d449bae39fcac1d5a0153547a1733115ef7",581 "language": "Python",582 "lines": 67,583 "truncated": false,584 "block": 23,585 "row": 2331586 }587 ]588}