{"id":"https://openalex.org/W4402266186","doi":"https://doi.org/10.1371/journal.pcbi.1012375","title":"Ten simple rules for scientific code review","display_name":"Ten simple rules for scientific code review","publication_year":2024,"publication_date":"2024-09-05","ids":{"openalex":"https://openalex.org/W4402266186","doi":"https://doi.org/10.1371/journal.pcbi.1012375","pmid":"https://pubmed.ncbi.nlm.nih.gov/39236077"},"language":"en","primary_location":{"id":"doi:10.1371/journal.pcbi.1012375","is_oa":true,"landing_page_url":"https://doi.org/10.1371/journal.pcbi.1012375","pdf_url":null,"source":{"id":"https://openalex.org/S86033158","display_name":"PLoS Computational Biology","issn_l":"1553-734X","issn":["1553-734X","1553-7358"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310315706","host_organization_name":"Public Library of Science","host_organization_lineage":["https://openalex.org/P4310315706"],"host_organization_lineage_names":["Public Library of Science"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"PLOS Computational Biology","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://doi.org/10.1371/journal.pcbi.1012375","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5057244887","display_name":"Ariel Rokem","orcid":"https://orcid.org/0000-0003-0679-1985"},"institutions":[{"id":"https://openalex.org/I201448701","display_name":"University of Washington","ror":"https://ror.org/00cvxb145","country_code":"US","type":"education","lineage":["https://openalex.org/I201448701"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Ariel Rokem","raw_affiliation_strings":["Department of Psychology and eScience Institute, University of Washington, Seattle, Washington, United States of America"],"affiliations":[{"raw_affiliation_string":"Department of Psychology and eScience Institute, University of Washington, Seattle, Washington, United States of America","institution_ids":["https://openalex.org/I201448701"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":1,"corresponding_author_ids":["https://openalex.org/A5057244887"],"corresponding_institution_ids":["https://openalex.org/I201448701"],"apc_list":{"value":2655,"currency":"USD","value_usd":2655},"apc_paid":{"value":2655,"currency":"USD","value_usd":2655},"fwci":7.1403,"has_fulltext":true,"cited_by_count":7,"citation_normalized_percentile":{"value":0.96833273,"is_in_top_1_percent":false,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":90,"max":100},"biblio":{"volume":"20","issue":"9","first_page":"e1012375","last_page":"e1012375"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T11986","display_name":"Scientific Computing and Data Management","score":0.9983999729156494,"subfield":{"id":"https://openalex.org/subfields/1802","display_name":"Information Systems and Management"},"field":{"id":"https://openalex.org/fields/18","display_name":"Decision Sciences"},"domain":{"id":"https://openalex.org/domains/2","display_name":"Social Sciences"}},"topics":[{"id":"https://openalex.org/T11986","display_name":"Scientific Computing and Data Management","score":0.9983999729156494,"subfield":{"id":"https://openalex.org/subfields/1802","display_name":"Information Systems and Management"},"field":{"id":"https://openalex.org/fields/18","display_name":"Decision Sciences"},"domain":{"id":"https://openalex.org/domains/2","display_name":"Social Sciences"}},{"id":"https://openalex.org/T10260","display_name":"Software Engineering Research","score":0.9939000010490417,"subfield":{"id":"https://openalex.org/subfields/1710","display_name":"Information Systems"},"field":{"id":"https://openalex.org/fields/17","display_name":"Computer Science"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}},{"id":"https://openalex.org/T13937","display_name":"Genetics, Bioinformatics, and Biomedical Research","score":0.9776999950408936,"subfield":{"id":"https://openalex.org/subfields/1312","display_name":"Molecular Biology"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/code-review","display_name":"Code review","score":0.7496432065963745},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.6947910785675049},{"id":"https://openalex.org/keywords/code","display_name":"Code (set theory)","score":0.6109733581542969},{"id":"https://openalex.org/keywords/software-engineering","display_name":"Software engineering","score":0.5807331204414368},{"id":"https://openalex.org/keywords/source-code","display_name":"Source code","score":0.5151978135108948},{"id":"https://openalex.org/keywords/software","display_name":"Software","score":0.48725762963294983},{"id":"https://openalex.org/keywords/domain","display_name":"Domain (mathematical analysis)","score":0.4645611345767975},{"id":"https://openalex.org/keywords/set","display_name":"Set (abstract data type)","score":0.44511541724205017},{"id":"https://openalex.org/keywords/data-science","display_name":"Data science","score":0.43799087405204773},{"id":"https://openalex.org/keywords/software-development","display_name":"Software development","score":0.40900179743766785},{"id":"https://openalex.org/keywords/static-program-analysis","display_name":"Static program analysis","score":0.402590274810791},{"id":"https://openalex.org/keywords/programming-language","display_name":"Programming language","score":0.21490710973739624}],"concepts":[{"id":"https://openalex.org/C150292731","wikidata":"https://www.wikidata.org/wiki/Q1342704","display_name":"Code review","level":5,"score":0.7496432065963745},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.6947910785675049},{"id":"https://openalex.org/C2776760102","wikidata":"https://www.wikidata.org/wiki/Q5139990","display_name":"Code (set theory)","level":3,"score":0.6109733581542969},{"id":"https://openalex.org/C115903868","wikidata":"https://www.wikidata.org/wiki/Q80993","display_name":"Software engineering","level":1,"score":0.5807331204414368},{"id":"https://openalex.org/C43126263","wikidata":"https://www.wikidata.org/wiki/Q128751","display_name":"Source code","level":2,"score":0.5151978135108948},{"id":"https://openalex.org/C2777904410","wikidata":"https://www.wikidata.org/wiki/Q7397","display_name":"Software","level":2,"score":0.48725762963294983},{"id":"https://openalex.org/C36503486","wikidata":"https://www.wikidata.org/wiki/Q11235244","display_name":"Domain (mathematical analysis)","level":2,"score":0.4645611345767975},{"id":"https://openalex.org/C177264268","wikidata":"https://www.wikidata.org/wiki/Q1514741","display_name":"Set (abstract data type)","level":2,"score":0.44511541724205017},{"id":"https://openalex.org/C2522767166","wikidata":"https://www.wikidata.org/wiki/Q2374463","display_name":"Data science","level":1,"score":0.43799087405204773},{"id":"https://openalex.org/C529173508","wikidata":"https://www.wikidata.org/wiki/Q638608","display_name":"Software development","level":3,"score":0.40900179743766785},{"id":"https://openalex.org/C137287247","wikidata":"https://www.wikidata.org/wiki/Q1329550","display_name":"Static program analysis","level":4,"score":0.402590274810791},{"id":"https://openalex.org/C199360897","wikidata":"https://www.wikidata.org/wiki/Q9143","display_name":"Programming language","level":1,"score":0.21490710973739624},{"id":"https://openalex.org/C134306372","wikidata":"https://www.wikidata.org/wiki/Q7754","display_name":"Mathematical analysis","level":1,"score":0.0},{"id":"https://openalex.org/C33923547","wikidata":"https://www.wikidata.org/wiki/Q395","display_name":"Mathematics","level":0,"score":0.0}],"mesh":[{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D017408","descriptor_name":"Guidelines as Topic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D017408","descriptor_name":"Guidelines as Topic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D017408","descriptor_name":"Guidelines as Topic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D017408","descriptor_name":"Guidelines as Topic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false}],"locations_count":4,"locations":[{"id":"doi:10.1371/journal.pcbi.1012375","is_oa":true,"landing_page_url":"https://doi.org/10.1371/journal.pcbi.1012375","pdf_url":null,"source":{"id":"https://openalex.org/S86033158","display_name":"PLoS Computational Biology","issn_l":"1553-734X","issn":["1553-734X","1553-7358"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310315706","host_organization_name":"Public Library of Science","host_organization_lineage":["https://openalex.org/P4310315706"],"host_organization_lineage_names":["Public Library of Science"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"PLOS Computational Biology","raw_type":"journal-article"},{"id":"pmid:39236077","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/39236077","pdf_url":null,"source":{"id":"https://openalex.org/S4306525036","display_name":"PubMed","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1299303238","host_organization_name":"National Institutes of Health","host_organization_lineage":["https://openalex.org/I1299303238"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"PLoS computational biology","raw_type":null},{"id":"pmh:oai:pubmedcentral.nih.gov:11376551","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/11376551","pdf_url":"https://pmc.ncbi.nlm.nih.gov/articles/PMC11376551/pdf/pcbi.1012375.pdf","source":{"id":"https://openalex.org/S2764455111","display_name":"PubMed Central","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1299303238","host_organization_name":"National Institutes of Health","host_organization_lineage":["https://openalex.org/I1299303238"],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"PLoS Comput Biol","raw_type":"Text"},{"id":"pmh:oai:doaj.org/article:cf1eee68a59549579ec8657bd6c0df6d","is_oa":true,"landing_page_url":"https://doaj.org/article/cf1eee68a59549579ec8657bd6c0df6d","pdf_url":null,"source":{"id":"https://openalex.org/S112646816","display_name":"SHILAP Revista de lepidopterolog\u00eda","issn_l":"0300-5267","issn":["0300-5267","2340-4078"],"is_oa":true,"is_in_doaj":true,"is_core":false,"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"host_organization_lineage_names":[],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"PLoS Computational Biology, Vol 20, Iss 9, p e1012375 (2024)","raw_type":"article"}],"best_oa_location":{"id":"doi:10.1371/journal.pcbi.1012375","is_oa":true,"landing_page_url":"https://doi.org/10.1371/journal.pcbi.1012375","pdf_url":null,"source":{"id":"https://openalex.org/S86033158","display_name":"PLoS Computational Biology","issn_l":"1553-734X","issn":["1553-734X","1553-7358"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310315706","host_organization_name":"Public Library of Science","host_organization_lineage":["https://openalex.org/P4310315706"],"host_organization_lineage_names":["Public Library of Science"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"PLOS Computational Biology","raw_type":"journal-article"},"sustainable_development_goals":[{"display_name":"Industry, innovation and infrastructure","id":"https://metadata.un.org/sdg/9","score":0.5199999809265137}],"awards":[{"id":"https://openalex.org/G2970764809","display_name":null,"funder_award_id":"MH121868","funder_id":"https://openalex.org/F4320337346","funder_display_name":"National Institute of Mental Health"},{"id":"https://openalex.org/G5643213215","display_name":null,"funder_award_id":"EB027585","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G5851825486","display_name":null,"funder_award_id":"EB027585","funder_id":"https://openalex.org/F4320337363","funder_display_name":"National Institute of Biomedical Imaging and Bioengineering"},{"id":"https://openalex.org/G6052167412","display_name":null,"funder_award_id":"1934292","funder_id":"https://openalex.org/F4320306076","funder_display_name":"National Science Foundation"},{"id":"https://openalex.org/G7807378769","display_name":null,"funder_award_id":"MH121867","funder_id":"https://openalex.org/F4320337346","funder_display_name":"National Institute of Mental Health"},{"id":"https://openalex.org/G848032724","display_name":null,"funder_award_id":"Science","funder_id":"https://openalex.org/F4320306076","funder_display_name":"National Science Foundation"}],"funders":[{"id":"https://openalex.org/F4320306076","display_name":"National Science Foundation","ror":"https://ror.org/021nxhr62"},{"id":"https://openalex.org/F4320306151","display_name":"Alfred P. Sloan Foundation","ror":"https://ror.org/052csg198"},{"id":"https://openalex.org/F4320306202","display_name":"Gordon and Betty Moore Foundation","ror":"https://ror.org/006wxqw41"},{"id":"https://openalex.org/F4320315474","display_name":"Chan Zuckerberg Initiative","ror":"https://ror.org/02qenvm24"},{"id":"https://openalex.org/F4320332161","display_name":"National Institutes of Health","ror":"https://ror.org/01cwqze88"},{"id":"https://openalex.org/F4320337346","display_name":"National Institute of Mental Health","ror":"https://ror.org/04xeg9z08"},{"id":"https://openalex.org/F4320337363","display_name":"National Institute of Biomedical Imaging and Bioengineering","ror":"https://ror.org/00372qc85"}],"has_content":{"grobid_xml":false,"pdf":false},"content_urls":null,"referenced_works_count":19,"referenced_works":["https://openalex.org/W1835879695","https://openalex.org/W2019257047","https://openalex.org/W2036318837","https://openalex.org/W2056265070","https://openalex.org/W2062791478","https://openalex.org/W2104266030","https://openalex.org/W2108025693","https://openalex.org/W2125204770","https://openalex.org/W2135547938","https://openalex.org/W2152168421","https://openalex.org/W2161407365","https://openalex.org/W2527035325","https://openalex.org/W2534699084","https://openalex.org/W2949379258","https://openalex.org/W2952156265","https://openalex.org/W3132513078","https://openalex.org/W3214279120","https://openalex.org/W4244831466","https://openalex.org/W4367176376"],"related_works":["https://openalex.org/W3006945192","https://openalex.org/W2904997879","https://openalex.org/W1976804602","https://openalex.org/W2390554102","https://openalex.org/W2909969119","https://openalex.org/W2098629748","https://openalex.org/W656101134","https://openalex.org/W3135060008","https://openalex.org/W2390085541","https://openalex.org/W1990888989"],"abstract_inverted_index":{"As":[0],"large,":[1],"high-dimensional":[2],"data":[3],"have":[4],"become":[5],"more":[6],"common,":[7],"software":[8,28,79],"development":[9],"is":[10,36,153],"playing":[11],"an":[12,194],"increasingly":[13],"important":[14],"role":[15],"in":[16,31,91,133],"research":[17,32,121],"across":[18],"many":[19],"different":[20],"fields.":[21],"This":[22],"creates":[23],"a":[24,47,115,119,136,170,189],"need":[25],"to":[26,65,184,200],"adopt":[27],"engineering":[29,38],"practices":[30],"settings.":[33],"Code":[34],"review":[35,129,181],"the":[37,55,74,78,92,98,108,156,166,173,176,186],"practice":[39],"of":[40,54,57,77,103,118,130,151,159,168,179],"giving":[41],"and":[42,51,80,101,175,197],"receiving":[43],"detailed":[44],"feedback":[45],"on":[46],"computer":[48,58],"program.":[49,122],"Consistent":[50],"continuous":[52],"examination":[53],"evolution":[56],"programs":[59],"by":[60],"others":[61],"has":[62],"been":[63],"shown":[64],"be":[66],"beneficial,":[67],"especially":[68],"when":[69,82],"reviewers":[70],"are":[71,182],"familiar":[72],"with":[73,188],"technical":[75,174],"aspects":[76,178],"also":[81],"they":[83],"possess":[84],"relevant":[85],"domain":[86],"expertise.":[87],"The":[88],"rules":[89],"described":[90],"present":[93],"article":[94],"provide":[95,107,124,185],"information":[96],"about":[97],"why,":[99],"when,":[100],"how":[102],"code":[104,112,131,160,180,201],"review.":[105,171,202],"They":[106,123],"motivation":[109],"for":[110,127,139,155,165],"continual":[111],"reviews":[113],"as":[114,135,141,143,162,164],"natural":[116],"part":[117],"rigorous":[120],"practical":[125],"guidelines":[126,152],"conducting":[128],"both":[132],"person,":[134],"\"lab":[137],"meeting":[138],"code,\"":[140],"well":[142,163],"asynchronously,":[144],"using":[145],"industry-standard":[146],"online":[147],"tools.":[148],"A":[149],"set":[150],"provided":[154],"nitty-gritty":[157],"details":[158],"review,":[161],"etiquette":[167],"such":[169],"Both":[172],"social":[177],"covered":[183],"reader":[187],"comprehensive":[190],"approach":[191,199],"that":[192],"facilitates":[193],"effective,":[195],"enjoyable,":[196],"educational":[198]},"counts_by_year":[{"year":2026,"cited_by_count":3},{"year":2025,"cited_by_count":3},{"year":2024,"cited_by_count":1}],"updated_date":"2026-04-10T15:06:20.359241","created_date":"2025-10-10T00:00:00"}
