{"id":"https://openalex.org/W2791462835","doi":"https://doi.org/10.7287/peerj.preprints.26727v1","title":"Towards computational reproducibility: researcher perspectives on the use and sharing of software","display_name":"Towards computational reproducibility: researcher perspectives on the use and sharing of software","publication_year":2018,"publication_date":"2018-03-19","ids":{"openalex":"https://openalex.org/W2791462835","doi":"https://doi.org/10.7287/peerj.preprints.26727v1","mag":"2791462835","pmid":"https://pubmed.ncbi.nlm.nih.gov/33816816"},"language":"en","primary_location":{"id":"doi:10.7287/peerj.preprints.26727v1","is_oa":true,"landing_page_url":"https://doi.org/10.7287/peerj.preprints.26727v1","pdf_url":null,"source":null,"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"acceptedVersion","is_accepted":true,"is_published":false,"raw_source_name":null,"raw_type":"posted-content"},"type":"article","indexed_in":["crossref","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://doi.org/10.7287/peerj.preprints.26727v1","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5023373923","display_name":"Yasmin AlNoamany","orcid":"https://orcid.org/0000-0003-4018-5153"},"institutions":[{"id":"https://openalex.org/I95457486","display_name":"University of California, Berkeley","ror":"https://ror.org/01an7q238","country_code":"US","type":"education","lineage":["https://openalex.org/I95457486"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Yasmin Alnoamany","raw_affiliation_strings":["The University Library, University of California, Berkeley, Berkeley, United States"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"The University Library, University of California, Berkeley, Berkeley, United States","institution_ids":["https://openalex.org/I95457486"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5003572051","display_name":"John Borghi","orcid":"https://orcid.org/0000-0001-9570-4163"},"institutions":[{"id":"https://openalex.org/I2801248553","display_name":"California Digital Library","ror":"https://ror.org/03yrm5c26","country_code":"US","type":"archive","lineage":["https://openalex.org/I2801248553","https://openalex.org/I4387154595"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"John A. Borghi","raw_affiliation_strings":["University of California Curation Center (UC3), California Digital Library, Oakland, United States"],"raw_orcid":"https://orcid.org/0000-0001-9570-4163","affiliations":[{"raw_affiliation_string":"University of California Curation Center (UC3), California Digital Library, Oakland, United States","institution_ids":["https://openalex.org/I2801248553"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":2,"corresponding_author_ids":["https://openalex.org/A5023373923"],"corresponding_institution_ids":["https://openalex.org/I95457486"],"apc_list":null,"apc_paid":null,"fwci":7.6529,"has_fulltext":false,"cited_by_count":19,"citation_normalized_percentile":{"value":0.97195834,"is_in_top_1_percent":false,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":89,"max":98},"biblio":{"volume":"4","issue":null,"first_page":"e163","last_page":"e163"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T11986","display_name":"Scientific Computing and Data Management","score":0.9997000098228455,"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":0.9997000098228455,"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/T11937","display_name":"Research Data Management Practices","score":0.9983999729156494,"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/T11719","display_name":"Data Quality and Management","score":0.961899995803833,"subfield":{"id":"https://openalex.org/subfields/1803","display_name":"Management Science and Operations Research"},"field":{"id":"https://openalex.org/fields/18","display_name":"Decision Sciences"},"domain":{"id":"https://openalex.org/domains/2","display_name":"Social Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.7235805988311768},{"id":"https://openalex.org/keywords/executable","display_name":"Executable","score":0.6798933148384094},{"id":"https://openalex.org/keywords/software","display_name":"Software","score":0.5783584117889404},{"id":"https://openalex.org/keywords/javascript","display_name":"JavaScript","score":0.5775619149208069},{"id":"https://openalex.org/keywords/software-engineering","display_name":"Software engineering","score":0.5766159892082214},{"id":"https://openalex.org/keywords/python","display_name":"Python (programming language)","score":0.5487403273582458},{"id":"https://openalex.org/keywords/software-development","display_name":"Software development","score":0.49686792492866516},{"id":"https://openalex.org/keywords/data-science","display_name":"Data science","score":0.49357616901397705},{"id":"https://openalex.org/keywords/variety","display_name":"Variety (cybernetics)","score":0.46541428565979004},{"id":"https://openalex.org/keywords/software-peer-review","display_name":"Software peer review","score":0.46021994948387146},{"id":"https://openalex.org/keywords/source-code","display_name":"Source code","score":0.4566880464553833},{"id":"https://openalex.org/keywords/software-analytics","display_name":"Software analytics","score":0.43487468361854553},{"id":"https://openalex.org/keywords/personal-software-process","display_name":"Personal software process","score":0.4197222888469696},{"id":"https://openalex.org/keywords/world-wide-web","display_name":"World Wide Web","score":0.41233140230178833},{"id":"https://openalex.org/keywords/software-construction","display_name":"Software construction","score":0.3097634017467499},{"id":"https://openalex.org/keywords/programming-language","display_name":"Programming language","score":0.18816876411437988},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.0980667769908905}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.7235805988311768},{"id":"https://openalex.org/C160145156","wikidata":"https://www.wikidata.org/wiki/Q778586","display_name":"Executable","level":2,"score":0.6798933148384094},{"id":"https://openalex.org/C2777904410","wikidata":"https://www.wikidata.org/wiki/Q7397","display_name":"Software","level":2,"score":0.5783584117889404},{"id":"https://openalex.org/C544833334","wikidata":"https://www.wikidata.org/wiki/Q2005","display_name":"JavaScript","level":2,"score":0.5775619149208069},{"id":"https://openalex.org/C115903868","wikidata":"https://www.wikidata.org/wiki/Q80993","display_name":"Software engineering","level":1,"score":0.5766159892082214},{"id":"https://openalex.org/C519991488","wikidata":"https://www.wikidata.org/wiki/Q28865","display_name":"Python (programming language)","level":2,"score":0.5487403273582458},{"id":"https://openalex.org/C529173508","wikidata":"https://www.wikidata.org/wiki/Q638608","display_name":"Software development","level":3,"score":0.49686792492866516},{"id":"https://openalex.org/C2522767166","wikidata":"https://www.wikidata.org/wiki/Q2374463","display_name":"Data science","level":1,"score":0.49357616901397705},{"id":"https://openalex.org/C136197465","wikidata":"https://www.wikidata.org/wiki/Q1729295","display_name":"Variety (cybernetics)","level":2,"score":0.46541428565979004},{"id":"https://openalex.org/C74579156","wikidata":"https://www.wikidata.org/wiki/Q7554342","display_name":"Software peer review","level":5,"score":0.46021994948387146},{"id":"https://openalex.org/C43126263","wikidata":"https://www.wikidata.org/wiki/Q128751","display_name":"Source code","level":2,"score":0.4566880464553833},{"id":"https://openalex.org/C171981572","wikidata":"https://www.wikidata.org/wiki/Q7554239","display_name":"Software analytics","level":5,"score":0.43487468361854553},{"id":"https://openalex.org/C39890963","wikidata":"https://www.wikidata.org/wiki/Q1702721","display_name":"Personal software process","level":5,"score":0.4197222888469696},{"id":"https://openalex.org/C136764020","wikidata":"https://www.wikidata.org/wiki/Q466","display_name":"World Wide Web","level":1,"score":0.41233140230178833},{"id":"https://openalex.org/C186846655","wikidata":"https://www.wikidata.org/wiki/Q3398377","display_name":"Software construction","level":4,"score":0.3097634017467499},{"id":"https://openalex.org/C199360897","wikidata":"https://www.wikidata.org/wiki/Q9143","display_name":"Programming language","level":1,"score":0.18816876411437988},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.0980667769908905}],"mesh":[],"locations_count":3,"locations":[{"id":"doi:10.7287/peerj.preprints.26727v1","is_oa":true,"landing_page_url":"https://doi.org/10.7287/peerj.preprints.26727v1","pdf_url":null,"source":null,"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"acceptedVersion","is_accepted":true,"is_published":false,"raw_source_name":null,"raw_type":"posted-content"},{"id":"pmid:33816816","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/33816816","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":"PeerJ. Computer science","raw_type":null},{"id":"pmh:oai:pubmedcentral.nih.gov:7924683","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/7924683","pdf_url":null,"source":{"id":"https://openalex.org/S2764455111","display_name":"PubMed Central","issn_l":null,"issn":null,"is_oa":true,"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":"PeerJ Comput Sci","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.7287/peerj.preprints.26727v1","is_oa":true,"landing_page_url":"https://doi.org/10.7287/peerj.preprints.26727v1","pdf_url":null,"source":null,"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"acceptedVersion","is_accepted":true,"is_published":false,"raw_source_name":null,"raw_type":"posted-content"},"sustainable_development_goals":[{"display_name":"Industry, innovation and infrastructure","score":0.47999998927116394,"id":"https://metadata.un.org/sdg/9"}],"awards":[],"funders":[],"has_content":{"grobid_xml":false,"pdf":false},"content_urls":null,"referenced_works_count":58,"referenced_works":["https://openalex.org/W1574680346","https://openalex.org/W1622429627","https://openalex.org/W1659560869","https://openalex.org/W1767470961","https://openalex.org/W1969790497","https://openalex.org/W1972581523","https://openalex.org/W1986142097","https://openalex.org/W1995054497","https://openalex.org/W1997854308","https://openalex.org/W2005085827","https://openalex.org/W2006291142","https://openalex.org/W2010551005","https://openalex.org/W2017419154","https://openalex.org/W2031934506","https://openalex.org/W2035251626","https://openalex.org/W2036318837","https://openalex.org/W2045005060","https://openalex.org/W2056265070","https://openalex.org/W2061939373","https://openalex.org/W2072876893","https://openalex.org/W2090469606","https://openalex.org/W2091636366","https://openalex.org/W2109647566","https://openalex.org/W2111768655","https://openalex.org/W2119031905","https://openalex.org/W2128189891","https://openalex.org/W2133559194","https://openalex.org/W2137973279","https://openalex.org/W2145809383","https://openalex.org/W2148906281","https://openalex.org/W2163981222","https://openalex.org/W2224340517","https://openalex.org/W2302501749","https://openalex.org/W2303220852","https://openalex.org/W2414283705","https://openalex.org/W2463769428","https://openalex.org/W2470289662","https://openalex.org/W2472803348","https://openalex.org/W2527181616","https://openalex.org/W2560471521","https://openalex.org/W2570760970","https://openalex.org/W2598912916","https://openalex.org/W2613987520","https://openalex.org/W2625117623","https://openalex.org/W2758409057","https://openalex.org/W2773787581","https://openalex.org/W2781579392","https://openalex.org/W2783258644","https://openalex.org/W2789963275","https://openalex.org/W2951092176","https://openalex.org/W2963508088","https://openalex.org/W2972566742","https://openalex.org/W3106149053","https://openalex.org/W3113043731","https://openalex.org/W3123005344","https://openalex.org/W3124326066","https://openalex.org/W3124333825","https://openalex.org/W3209265069"],"related_works":["https://openalex.org/W1505612340","https://openalex.org/W1985363770","https://openalex.org/W1991134941","https://openalex.org/W2289273099","https://openalex.org/W2611701482","https://openalex.org/W3174067697","https://openalex.org/W2729605296","https://openalex.org/W2512341330","https://openalex.org/W2068215719","https://openalex.org/W1955230756"],"abstract_inverted_index":{"Research":[0],"software,":[1,207],"which":[2],"includes":[3],"both":[4],"source":[5,110,157],"code":[6,158],"and":[7,52,75,99,101,159,173,186,204,210],"executables":[8,161],"used":[9,130,142],"as":[10,44,46],"part":[11],"of":[12,41,60,66,82,88,120,140,180,183,206,218],"the":[13,39,58,178,202,219],"research":[14,42,67],"process,":[15],"presents":[16],"a":[17,34,64,79,85,116,132,137,199],"significant":[18],"challenge":[19],"for":[20,84],"efforts":[21],"aimed":[22],"at":[23],"ensuring":[24],"reproducibility.":[25],"In":[26],"order":[27],"to":[28,36,177],"inform":[29],"such":[30],"efforts,":[31],"we":[32,69],"conducted":[33],"survey":[35],"better":[37],"understand":[38],"characteristics":[40],"software":[43,77,111,184],"well":[45],"how":[47],"it":[48],"is":[49,136],"created,":[50],"used,":[51],"shared":[53],"by":[54,131,143],"researchers.":[55],"Based":[56],"on":[57],"responses":[59],"215":[61],"participants,":[62],"representing":[63],"range":[65],"disciplines,":[68],"found":[70],"that":[71,106,149,196],"researchers":[72,169],"create,":[73],"use,":[74],"share":[76],"in":[78],"wide":[80,86],"variety":[81,87],"forms":[83],"purposes,":[89],"including":[90],"data":[91,93,95,97],"collection,":[92],"analysis,":[94],"visualization,":[96],"cleaning":[98],"organization,":[100],"automation.":[102],"More":[103],"participants":[104,152,163,194],"indicated":[105,195],"they":[107,197],"use":[108],"open":[109],"than":[112,162],"commercial":[113],"software.":[114],"While":[115,192],"relatively":[117,144],"small":[118],"number":[119],"programming":[121],"languages":[122,141],"(e.g.,":[123],"Python,":[124],"R,":[125],"JavaScript,":[126],"C++,":[127],"MATLAB)":[128],"are":[129],"large":[133],"number,":[134],"there":[135],"long":[138],"tail":[139],"few.":[145],"Between-group":[146],"comparisons":[147],"revealed":[148],"significantly":[150],"more":[151],"from":[153,164,170],"computer":[154,171],"science":[155,172],"write":[156],"create":[160],"other":[165,174],"disciplines.":[166],"Differences":[167],"between":[168,201],"disciplines":[175],"related":[176,208],"knowledge":[179],"best":[181],"practices":[182,209],"creation":[185],"sharing":[187,203],"were":[188,212],"not":[189,214],"statistically":[190],"significant.":[191],"many":[193],"draw":[198],"distinction":[200],"preservation":[205],"perceptions":[211],"often":[213],"aligned":[215],"with":[216],"those":[217],"broader":[220],"scholarly":[221],"communications":[222],"community.":[223]},"counts_by_year":[{"year":2024,"cited_by_count":1},{"year":2023,"cited_by_count":1},{"year":2022,"cited_by_count":3},{"year":2021,"cited_by_count":7},{"year":2020,"cited_by_count":1},{"year":2019,"cited_by_count":3},{"year":2018,"cited_by_count":3}],"updated_date":"2025-11-06T03:46:38.306776","created_date":"2025-10-10T00:00:00"}