{"id":61664,"name":"mungesumstats","description":"Rapid standardisation and quality control of GWAS or QTL summary statistics","url":"https://github.com/al-murphy/mungesumstats","last_synced_at":"2025-09-08T10:48:46.963Z","repository":{"id":41460223,"uuid":"352932559","full_name":"Al-Murphy/MungeSumstats","owner":"Al-Murphy","description":"Rapid standardisation and quality control of GWAS or QTL summary statistics","archived":false,"fork":false,"pushed_at":"2025-08-25T21:11:09.000Z","size":9870,"stargazers_count":86,"open_issues_count":10,"forks_count":18,"subscribers_count":3,"default_branch":"master","last_synced_at":"2025-09-01T13:40:40.974Z","etag":null,"topics":["bioconductor-package","bioinformatics","database-api","genomics","gwas","qtl","r","r-package","standardisation","summary-statistics","vcf-files"],"latest_commit_sha":null,"homepage":"https://al-murphy.github.io/MungeSumstats/","language":"R","has_issues":true,"has_wiki":null,"has_pages":null,"mirror_url":null,"source_name":null,"license":null,"status":null,"scm":"git","pull_requests_enabled":true,"icon_url":"https://github.com/Al-Murphy.png","metadata":{"files":{"readme":"README.Rmd","changelog":"NEWS.md","contributing":null,"funding":null,"license":null,"code_of_conduct":null,"threat_model":null,"audit":null,"citation":null,"codeowners":null,"security":null,"support":null,"governance":null,"roadmap":null,"authors":null,"dei":null,"publiccode":null,"codemeta":null,"zenodo":null}},"created_at":"2021-03-30T08:49:37.000Z","updated_at":"2025-08-25T21:11:13.000Z","dependencies_parsed_at":"2024-08-01T13:03:49.725Z","dependency_job_id":"ed21caa2-d209-4299-b99e-2a15b42ec495","html_url":"https://github.com/Al-Murphy/MungeSumstats","commit_stats":{"total_commits":349,"total_committers":12,"mean_commits":"29.083333333333332","dds":"0.42979942693409745","last_synced_commit":"6b36d67ce8ae8de04f1149ab94f7e3ded47bb5f3"},"previous_names":["al-murphy/mungesumstats"],"tags_count":0,"template":false,"template_full_name":null,"purl":"pkg:github/Al-Murphy/MungeSumstats","repository_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/Al-Murphy%2FMungeSumstats","tags_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/Al-Murphy%2FMungeSumstats/tags","releases_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/Al-Murphy%2FMungeSumstats/releases","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/Al-Murphy%2FMungeSumstats/manifests","owner_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/owners/Al-Murphy","download_url":"https://codeload.github.com/Al-Murphy/MungeSumstats/tar.gz/refs/heads/master","sbom_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/Al-Murphy%2FMungeSumstats/sbom","scorecard":null,"host":{"name":"GitHub","url":"https://github.com","kind":"github","repositories_count":274173626,"owners_count":25235198,"icon_url":"https://github.com/github.png","version":null,"created_at":"2022-05-30T11:31:42.601Z","updated_at":"2022-07-04T15:15:14.044Z","status":"online","status_checked_at":"2025-09-08T02:00:09.813Z","response_time":121,"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"}},"owner":{"login":"Al-Murphy","name":"Alan Murphy","uuid":"62257358","kind":"user","description":"Computational Biologist,\r\nPhD Student,\r\nNeurogenomics","email":"","website":"https://al-murphy.github.io/","location":"London","twitter":"Al_Murphy_","company":"UK DRI at Imperial College London","icon_url":"https://avatars.githubusercontent.com/u/62257358?u=3d1285dae90b3873460dd42b1efdd0b470362667\u0026v=4","repositories_count":1,"last_synced_at":"2023-09-02T10:20:03.536Z","metadata":{"has_sponsors_listing":false},"html_url":"https://github.com/Al-Murphy","funding_links":[],"total_stars":null,"followers":null,"following":null,"created_at":"2023-09-02T10:20:03.538Z","updated_at":"2023-09-02T10:20:03.538Z","owner_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/owners/Al-Murphy","repositories_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/owners/Al-Murphy/repositories"},"packages":null,"commits":{"id":9005442,"full_name":"al-murphy/mungesumstats","default_branch":"master","committers":[{"name":"Al-Murphy","email":"alanmurph94@hotmail.com","login":"Al-Murphy","count":235},{"name":"Brian M. Schilder","email":"34280215+bschilder","login":"bschilder","count":120},{"name":"sjfandrews","email":"s.j.f.andrews@gmail.com","login":"sjfandrews","count":13},{"name":"J Wokaty","email":"jennifer.wokaty@sph.cuny.edu","login":"jwokaty","count":10},{"name":"Nitesh Turaga","email":"nitesh.turaga@gmail.com","login":"nturaga","count":6},{"name":"Jonathan Griffiths","email":"7976085+jonathangriffiths","login":"jonathangriffiths","count":5},{"name":"Brian Fulton-Howard","email":"fultonh1@gmail.com","login":"BEFH","count":4},{"name":"A Wokaty","email":"andres.wokaty@sph.cuny.edu","login":null,"count":2},{"name":"rmgpanw","email":"alasdair.warwick06@gmail.com","login":"rmgpanw","count":1},{"name":"lshep","email":"lori.shepherd@roswellpark.org","login":"lshep","count":1},{"name":"cfbeuchel","email":"carl.beuchel@charite.de","login":"cfbeuchel","count":1},{"name":"MykMal","email":"malakhov@dnli.com","login":null,"count":1}],"total_commits":399,"total_committers":12,"total_bot_commits":0,"total_bot_committers":0,"mean_commits":33.25,"dds":0.41102756892230574,"past_year_committers":[{"name":"Al-Murphy","email":"alanmurph94@hotmail.com","login":"Al-Murphy","count":20},{"name":"J Wokaty","email":"jennifer.wokaty@sph.cuny.edu","login":"jwokaty","count":2},{"name":"A Wokaty","email":"andres.wokaty@sph.cuny.edu","login":null,"count":2}],"past_year_total_commits":24,"past_year_total_committers":3,"past_year_total_bot_commits":0,"past_year_total_bot_committers":0,"past_year_mean_commits":8.0,"past_year_dds":0.16666666666666663,"last_synced_at":"2025-05-23T13:19:43.057Z","last_synced_commit":"7ee83659ee5d9346c5de000c46dad4e443308ab2","created_at":"2025-03-04T00:53:00.499Z","updated_at":"2025-05-23T13:19:43.088Z","commits_url":"https://commits.ecosyste.ms/api/v1/hosts/GitHub/repositories/al-murphy%2Fmungesumstats/commits","host":{"name":"GitHub","url":"https://github.com","kind":"github","last_synced_at":"2025-08-27T00:00:29.048Z","repositories_count":5479765,"commits_count":853308191,"contributors_count":31095157,"owners_count":906558,"icon_url":"https://github.com/github.png","host_url":"https://commits.ecosyste.ms/api/v1/hosts/GitHub","repositories_url":"https://commits.ecosyste.ms/api/v1/hosts/GitHub/repositories"}},"issues_stats":{"full_name":"al-murphy/mungesumstats","html_url":"https://github.com/al-murphy/mungesumstats","last_synced_at":"2025-08-31T09:51:49.563Z","status":null,"issues_count":7,"pull_requests_count":3,"avg_time_to_close_issue":4232351.5,"avg_time_to_close_pull_request":186768.0,"issues_closed_count":6,"pull_requests_closed_count":3,"pull_request_authors_count":1,"issue_authors_count":6,"avg_comments_per_issue":1.2857142857142858,"avg_comments_per_pull_request":0.3333333333333333,"merged_pull_requests_count":2,"bot_issues_count":0,"bot_pull_requests_count":0,"past_year_issues_count":7,"past_year_pull_requests_count":3,"past_year_avg_time_to_close_issue":4232351.5,"past_year_avg_time_to_close_pull_request":186768.0,"past_year_issues_closed_count":6,"past_year_pull_requests_closed_count":3,"past_year_pull_request_authors_count":1,"past_year_issue_authors_count":6,"past_year_avg_comments_per_issue":1.2857142857142858,"past_year_avg_comments_per_pull_request":0.3333333333333333,"past_year_bot_issues_count":0,"past_year_bot_pull_requests_count":0,"past_year_merged_pull_requests_count":2,"created_at":"2025-03-04T00:53:03.424Z","updated_at":"2025-09-03T04:26:19.226Z","repository_url":"https://issues.ecosyste.ms/api/v1/hosts/GitHub/repositories/al-murphy%2Fmungesumstats","issues_url":"https://issues.ecosyste.ms/api/v1/hosts/GitHub/repositories/al-murphy%2Fmungesumstats/issues","issue_labels_count":{"bug":7,"help wanted":2,"enhancement":1},"pull_request_labels_count":{"help wanted":1},"issue_author_associations_count":{"NONE":15,"OWNER":3,"CONTRIBUTOR":1,"COLLABORATOR":1},"pull_request_author_associations_count":{"NONE":4,"OWNER":2},"issue_authors":{"Al-Murphy":3,"shaman-yellow":2,"LouChen-med":2,"jksull":1,"songlyzz":1,"rmgpanw":1,"AhmedArslan":1,"htqqdd":1,"svenkatesh25":1,"bschilder":1,"jaqueytw":1,"JacksonDU630":1,"karpat90":1,"AndyYang0924":1,"DaXuanGarden":1,"sufyansuleman":1},"pull_request_authors":{"sufyansuleman":3,"Al-Murphy":2,"MC4R":1},"host":{"name":"GitHub","url":"https://github.com","kind":"github","last_synced_at":"2025-09-08T00:00:17.013Z","repositories_count":10164087,"issues_count":31988492,"pull_requests_count":100218704,"authors_count":10728235,"icon_url":"https://github.com/github.png","host_url":"https://issues.ecosyste.ms/api/v1/hosts/GitHub","repositories_url":"https://issues.ecosyste.ms/api/v1/hosts/GitHub/repositories","owners_url":"https://issues.ecosyste.ms/api/v1/hosts/GitHub/owners","authors_url":"https://issues.ecosyste.ms/api/v1/hosts/GitHub/authors"},"past_year_issue_labels_count":{"bug":6,"help wanted":1},"past_year_pull_request_labels_count":{"help wanted":1},"past_year_issue_author_associations_count":{"NONE":9,"OWNER":3,"CONTRIBUTOR":1},"past_year_pull_request_author_associations_count":{"NONE":3,"OWNER":2},"past_year_issue_authors":{"Al-Murphy":3,"LouChen-med":2,"shaman-yellow":2,"JacksonDU630":1,"jaqueytw":1,"karpat90":1,"rmgpanw":1,"songlyzz":1,"sufyansuleman":1},"past_year_pull_request_authors":{"sufyansuleman":3,"Al-Murphy":2},"maintainers":[{"login":"Al-Murphy","count":5,"url":"https://issues.ecosyste.ms/api/v1/hosts/GitHub/authors/Al-Murphy"},{"login":"bschilder","count":1,"url":"https://issues.ecosyste.ms/api/v1/hosts/GitHub/authors/bschilder"}],"active_maintainers":[{"login":"Al-Murphy","count":5,"url":"https://issues.ecosyste.ms/api/v1/hosts/GitHub/authors/Al-Murphy"}]},"events":{"total":{"IssuesEvent":21,"WatchEvent":8,"IssueCommentEvent":22,"PushEvent":16,"PullRequestEvent":2,"GollumEvent":9,"ForkEvent":3,"CreateEvent":3},"last_year":{"IssuesEvent":21,"WatchEvent":8,"IssueCommentEvent":22,"PushEvent":16,"PullRequestEvent":2,"GollumEvent":9,"ForkEvent":3,"CreateEvent":3}},"keywords":["bioconductor-package","bioinformatics","database-api","genomics","gwas","qtl","r","r-package","standardisation","summary-statistics","vcf-files"],"dependencies":[{"ecosystem":"cran","filepath":"DESCRIPTION","sha":null,"kind":"manifest","created_at":"2022-08-10T02:39:23.884Z","updated_at":"2022-08-10T02:39:23.884Z","repository_link":"https://github.com/Al-Murphy/MungeSumstats/blob/master/DESCRIPTION","dependencies":[{"id":995579243,"package_name":"R","ecosystem":"cran","requirements":"\u003e= 4.1","direct":true,"kind":"depends","optional":false},{"id":995579244,"package_name":"magrittr","ecosystem":"cran","requirements":"*","direct":true,"kind":"imports","optional":false},{"id":995579245,"package_name":"data.table","ecosystem":"cran","requirements":"*","direct":true,"kind":"imports","optional":false},{"id":995579246,"package_name":"utils","ecosystem":"cran","requirements":"*","direct":true,"kind":"imports","optional":false},{"id":995579247,"package_name":"R.utils","ecosystem":"cran","requirements":"*","direct":true,"kind":"imports","optional":false},{"id":995579248,"package_name":"dplyr","ecosystem":"cran","requirements":"*","direct":true,"kind":"imports","optional":false},{"id":995579249,"package_name":"stats","ecosystem":"cran","requirements":"*","direct":true,"kind":"imports","optional":false},{"id":995579250,"package_name":"GenomicRanges","ecosystem":"cran","requirements":"*","direct":true,"kind":"imports","optional":false},{"id":995579251,"package_name":"IRanges","ecosystem":"cran","requirements":"*","direct":true,"kind":"imports","optional":false},{"id":995579252,"package_name":"GenomeInfoDb","ecosystem":"cran","requirements":"*","direct":true,"kind":"imports","optional":false},{"id":995579253,"package_name":"BSgenome","ecosystem":"cran","requirements":"*","direct":true,"kind":"imports","optional":false},{"id":995579254,"package_name":"Biostrings","ecosystem":"cran","requirements":"*","direct":true,"kind":"imports","optional":false},{"id":995579255,"package_name":"stringr","ecosystem":"cran","requirements":"*","direct":true,"kind":"imports","optional":false},{"id":995579256,"package_name":"VariantAnnotation","ecosystem":"cran","requirements":"*","direct":true,"kind":"imports","optional":false},{"id":995579257,"package_name":"googleAuthR","ecosystem":"cran","requirements":"*","direct":true,"kind":"imports","optional":false},{"id":995579258,"package_name":"httr","ecosystem":"cran","requirements":"*","direct":true,"kind":"imports","optional":false},{"id":995579259,"package_name":"jsonlite","ecosystem":"cran","requirements":"*","direct":true,"kind":"imports","optional":false},{"id":995579260,"package_name":"methods","ecosystem":"cran","requirements":"*","direct":true,"kind":"imports","optional":false},{"id":995579261,"package_name":"parallel","ecosystem":"cran","requirements":"*","direct":true,"kind":"imports","optional":false},{"id":995579262,"package_name":"rtracklayer","ecosystem":"cran","requirements":"*","direct":true,"kind":"imports","optional":false},{"id":995579263,"package_name":"RCurl","ecosystem":"cran","requirements":"*","direct":true,"kind":"imports","optional":false},{"id":995579264,"package_name":"SNPlocs.Hsapiens.dbSNP144.GRCh37","ecosystem":"cran","requirements":"*","direct":true,"kind":"suggests","optional":false},{"id":995579265,"package_name":"SNPlocs.Hsapiens.dbSNP144.GRCh38","ecosystem":"cran","requirements":"*","direct":true,"kind":"suggests","optional":false},{"id":995579266,"package_name":"SNPlocs.Hsapiens.dbSNP155.GRCh37","ecosystem":"cran","requirements":"*","direct":true,"kind":"suggests","optional":false},{"id":995579267,"package_name":"SNPlocs.Hsapiens.dbSNP155.GRCh38","ecosystem":"cran","requirements":"*","direct":true,"kind":"suggests","optional":false},{"id":995579268,"package_name":"BSgenome.Hsapiens.1000genomes.hs37d5","ecosystem":"cran","requirements":"*","direct":true,"kind":"suggests","optional":false},{"id":995579269,"package_name":"BSgenome.Hsapiens.NCBI.GRCh38","ecosystem":"cran","requirements":"*","direct":true,"kind":"suggests","optional":false},{"id":995579270,"package_name":"BiocGenerics","ecosystem":"cran","requirements":"*","direct":true,"kind":"suggests","optional":false},{"id":995579271,"package_name":"S4Vectors","ecosystem":"cran","requirements":"*","direct":true,"kind":"suggests","optional":false},{"id":995579272,"package_name":"rmarkdown","ecosystem":"cran","requirements":"*","direct":true,"kind":"suggests","optional":false},{"id":995579273,"package_name":"markdown","ecosystem":"cran","requirements":"*","direct":true,"kind":"suggests","optional":false},{"id":995579274,"package_name":"knitr","ecosystem":"cran","requirements":"*","direct":true,"kind":"suggests","optional":false},{"id":995579275,"package_name":"testthat","ecosystem":"cran","requirements":"\u003e= 3.0.0","direct":true,"kind":"suggests","optional":false},{"id":995579276,"package_name":"UpSetR","ecosystem":"cran","requirements":"*","direct":true,"kind":"suggests","optional":false},{"id":995579277,"package_name":"BiocStyle","ecosystem":"cran","requirements":"*","direct":true,"kind":"suggests","optional":false},{"id":995579278,"package_name":"covr","ecosystem":"cran","requirements":"*","direct":true,"kind":"suggests","optional":false},{"id":995579279,"package_name":"seqminer","ecosystem":"cran","requirements":"*","direct":true,"kind":"suggests","optional":false},{"id":995579280,"package_name":"Rsamtools","ecosystem":"cran","requirements":"*","direct":true,"kind":"suggests","optional":false},{"id":995579281,"package_name":"MatrixGenerics","ecosystem":"cran","requirements":"*","direct":true,"kind":"suggests","optional":false},{"id":995579282,"package_name":"badger","ecosystem":"cran","requirements":"*","direct":true,"kind":"suggests","optional":false},{"id":995579283,"package_name":"BiocParallel","ecosystem":"cran","requirements":"*","direct":true,"kind":"suggests","optional":false},{"id":995579284,"package_name":"GenomicFiles","ecosystem":"cran","requirements":"*","direct":true,"kind":"suggests","optional":false}]},{"ecosystem":"actions","filepath":".github/workflows/rworkflows.yml","sha":null,"kind":"manifest","created_at":"2023-02-04T06:32:03.108Z","updated_at":"2023-02-04T06:32:03.108Z","repository_link":"https://github.com/Al-Murphy/MungeSumstats/blob/master/.github/workflows/rworkflows.yml","dependencies":[{"id":7345322105,"package_name":"neurogenomics/rworkflows","ecosystem":"actions","requirements":"master","direct":true,"kind":"composite","optional":false}]}],"score":7.049254841255836,"created_at":"2025-09-08T10:46:10.754Z","updated_at":"2025-10-07T08:24:09.386Z","avatar_url":"https://github.com/Al-Murphy.png","language":"R","category":null,"sub_category":null,"monthly_downloads":0,"funding_links":[],"readme_doi_urls":["https://doi.org/10.1093/bioinformatics/btab665"],"works":{},"citation_counts":{},"total_citations":0,"keywords_from_contributors":["rnaseq","recount3","recount","mouse","junction","illumina","human","gene","exon","derfinder"],"project_url":"https://science.ecosyste.ms/api/v1/projects/61664","html_url":"https://science.ecosyste.ms/projects/61664"}