{"id":32620424,"url":"https://github.com/kechrislab/combat_dogbrainmri","last_synced_at":"2026-06-13T16:32:07.361Z","repository":{"id":38184135,"uuid":"437116403","full_name":"KechrisLab/ComBat_dogBrainMRI","owner":"KechrisLab","description":null,"archived":false,"fork":false,"pushed_at":"2022-06-10T17:37:45.000Z","size":70,"stargazers_count":0,"open_issues_count":0,"forks_count":0,"subscribers_count":2,"default_branch":"main","last_synced_at":"2025-12-25T22:26:13.001Z","etag":null,"topics":[],"latest_commit_sha":null,"homepage":null,"language":"R","has_issues":true,"has_wiki":null,"has_pages":null,"mirror_url":null,"source_name":null,"license":"gpl-3.0","status":null,"scm":"git","pull_requests_enabled":true,"icon_url":"https://github.com/KechrisLab.png","metadata":{"files":{"readme":"README.md","changelog":null,"contributing":null,"funding":null,"license":"LICENSE.md","code_of_conduct":null,"threat_model":null,"audit":null,"citation":null,"codeowners":null,"security":null,"support":null}},"created_at":"2021-12-10T21:17:38.000Z","updated_at":"2022-05-06T20:08:02.000Z","dependencies_parsed_at":"2022-08-31T09:31:37.720Z","dependency_job_id":null,"html_url":"https://github.com/KechrisLab/ComBat_dogBrainMRI","commit_stats":null,"previous_names":[],"tags_count":1,"template":false,"template_full_name":null,"purl":"pkg:github/KechrisLab/ComBat_dogBrainMRI","repository_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/KechrisLab%2FComBat_dogBrainMRI","tags_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/KechrisLab%2FComBat_dogBrainMRI/tags","releases_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/KechrisLab%2FComBat_dogBrainMRI/releases","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/KechrisLab%2FComBat_dogBrainMRI/manifests","owner_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/owners/KechrisLab","download_url":"https://codeload.github.com/KechrisLab/ComBat_dogBrainMRI/tar.gz/refs/heads/main","sbom_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/KechrisLab%2FComBat_dogBrainMRI/sbom","scorecard":null,"host":{"name":"GitHub","url":"https://github.com","kind":"github","repositories_count":286080680,"owners_count":34292323,"icon_url":"https://github.com/github.png","version":null,"created_at":"2022-05-30T11:31:42.601Z","updated_at":"2026-05-26T15:22:16.424Z","status":"online","status_checked_at":"2026-06-13T02:00:06.617Z","response_time":62,"last_error":null,"robots_txt_status":"success","robots_txt_updated_at":"2025-07-24T06:49:26.215Z","robots_txt_url":"https://github.com/robots.txt","online":true,"can_crawl_api":true,"host_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub","repositories_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories","repository_names_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repository_names","owners_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/owners"}},"keywords":[],"created_at":"2025-10-30T18:20:31.301Z","updated_at":"2026-06-13T16:32:07.356Z","avatar_url":"https://github.com/KechrisLab.png","language":"R","funding_links":[],"categories":[],"sub_categories":[],"readme":"# ComBat_DogBrainMRI\nThis repository contains the R-codes for the analyses, tables, and figures presented in the manuscript entitled \"MRI data harmonization across sites using ComBat enhances classification of meningioma and glioma brain tumors in dogs: a case study\" by Nandy et al., 2021+ (manuscript under review).\n\n## R scripts\n\n1. 3clinLowerUpper_RF_SMOTE_75iters_050321.R\n\n     Case 0 pre-ComBat lower bounds and upper bounds; no ComBat harmonization involved; only three clinical covariates in the RF model \n  \n2. 3imgVars_prepostComBat_051021.R\n\n     Pre-ComBat lower bounds, Case 1 scenarios a and b post-ComBat lower bounds, and upper bounds; only three image variables in the RF model\n  \n3. ComBat_3img3clin_050721.R \n\n     Case 1 scenarios c and d post-ComBat lower bounds; three image variables and three clinical covariates in the RF model\n  \n4. preComBat_3img3clin_LowerUpper_050721.R\n\n     Pre-ComBat lower bounds and upper bounds; three image variables and three clinical covariates in the RF model\n\n5. ComBat_Scenario3_allcovs_090321.R\n\n     Case 2, scenarios a-d, post-ComBat lower bounds\n  \n6. Figures.R\n\n     Codes generating Figures 1, S2-S7\n  \n7. TableS6Case1_Case0.R\n\n     Codes generating the entries of and performing comparisons within Tables 1 and S6 (Case 1) and comparisons among Case 0 and Case 1 scenarios\n  \n8. TableS7_Case2.R\n\n     Codes generating the entries of and performing comparisons within Table S7 (Case 2)\n  \n9. dataPreprocessing_CCTSIproject_Final.R\n\n     Codes for preprocessing the original data to create: (1) the final data frames that are used for analyses in Cases 0, 1, and 2 and (2) the entries for Tables S1-S3 \n\n## RData files\n   \n   All the RData files required to run the above scripts are available within this OneDrive folder: https://olucdenver-my.sharepoint.com/:f:/g/personal/debmalya_nandy_cuanschutz_edu/EvumZKP_09FAoLusQBQSJagBBv7xLUn74_86ZeuQByVptA?e=j4u6w0 (passcode: dogMRI@CCTSI2021)\n","project_url":"https://awesome.ecosyste.ms/api/v1/projects/github.com%2Fkechrislab%2Fcombat_dogbrainmri","html_url":"https://awesome.ecosyste.ms/projects/github.com%2Fkechrislab%2Fcombat_dogbrainmri","lists_url":"https://awesome.ecosyste.ms/api/v1/projects/github.com%2Fkechrislab%2Fcombat_dogbrainmri/lists"}