{"id":"https://openalex.org/W2625100593","doi":"https://doi.org/10.1093/bioinformatics/btx392","title":"matter: an R package for rapid prototyping with larger-than-memory datasets on disk","display_name":"matter: an R package for rapid prototyping with larger-than-memory datasets on disk","publication_year":2017,"publication_date":"2017-06-14","ids":{"openalex":"https://openalex.org/W2625100593","doi":"https://doi.org/10.1093/bioinformatics/btx392","mag":"2625100593","pmid":"https://pubmed.ncbi.nlm.nih.gov/28633357"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/btx392","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btx392","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/33/19/3142/49041259/bioinformatics_33_19_3142.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"is_oa":false,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"hybrid","oa_url":"https://academic.oup.com/bioinformatics/article-pdf/33/19/3142/49041259/bioinformatics_33_19_3142.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5047050739","display_name":"Kylie Ariel Bemis","orcid":null},"institutions":[{"id":"https://openalex.org/I12912129","display_name":"Northeastern University","ror":"https://ror.org/04t5xt781","country_code":"US","type":"education","lineage":["https://openalex.org/I12912129"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Kylie A Bemis","raw_affiliation_strings":["College of Computer and Information Science, Northeastern University, Boston, MA, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"College of Computer and Information Science, Northeastern University, Boston, MA, USA","institution_ids":["https://openalex.org/I12912129"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5088073215","display_name":"Olga Vitek","orcid":"https://orcid.org/0000-0003-1728-1104"},"institutions":[{"id":"https://openalex.org/I12912129","display_name":"Northeastern University","ror":"https://ror.org/04t5xt781","country_code":"US","type":"education","lineage":["https://openalex.org/I12912129"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Olga Vitek","raw_affiliation_strings":["College of Computer and Information Science, Northeastern University, Boston, MA, USA","Department of Chemistry and Chemical Biology, College of Science, Northeastern University, Boston, MA, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"College of Computer and Information Science, Northeastern University, Boston, MA, USA","institution_ids":["https://openalex.org/I12912129"]},{"raw_affiliation_string":"Department of Chemistry and Chemical Biology, College of Science, Northeastern University, Boston, MA, USA","institution_ids":["https://openalex.org/I12912129"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":1,"corresponding_author_ids":["https://openalex.org/A5088073215"],"corresponding_institution_ids":["https://openalex.org/I12912129"],"apc_list":{"value":3618,"currency":"USD","value_usd":3618},"apc_paid":{"value":3618,"currency":"USD","value_usd":3618},"fwci":1.3016,"has_fulltext":true,"cited_by_count":4,"citation_normalized_percentile":{"value":0.88525136,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":96},"biblio":{"volume":"33","issue":"19","first_page":"3142","last_page":"3144"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T11986","display_name":"Scientific Computing and Data Management","score":0.2076999992132187,"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":0.2076999992132187,"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/T12859","display_name":"Cell Image Analysis Techniques","score":0.13619999587535858,"subfield":{"id":"https://openalex.org/subfields/1304","display_name":"Biophysics"},"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"}},{"id":"https://openalex.org/T10857","display_name":"Advanced Electron Microscopy Techniques and Applications","score":0.13500000536441803,"subfield":{"id":"https://openalex.org/subfields/1315","display_name":"Structural 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/r-package","display_name":"R package","score":0.6865740418434143},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.6402157545089722},{"id":"https://openalex.org/keywords/rapid-prototyping","display_name":"Rapid prototyping","score":0.6119575500488281},{"id":"https://openalex.org/keywords/software-package","display_name":"Software package","score":0.470004141330719},{"id":"https://openalex.org/keywords/software","display_name":"Software","score":0.4399985373020172},{"id":"https://openalex.org/keywords/operating-system","display_name":"Operating system","score":0.40546393394470215},{"id":"https://openalex.org/keywords/programming-language","display_name":"Programming language","score":0.27584755420684814},{"id":"https://openalex.org/keywords/engineering","display_name":"Engineering","score":0.1016198992729187}],"concepts":[{"id":"https://openalex.org/C2984074130","wikidata":"https://www.wikidata.org/wiki/Q73539779","display_name":"R package","level":2,"score":0.6865740418434143},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.6402157545089722},{"id":"https://openalex.org/C2780395129","wikidata":"https://www.wikidata.org/wiki/Q1128971","display_name":"Rapid prototyping","level":2,"score":0.6119575500488281},{"id":"https://openalex.org/C3020440742","wikidata":"https://www.wikidata.org/wiki/Q1176855","display_name":"Software package","level":3,"score":0.470004141330719},{"id":"https://openalex.org/C2777904410","wikidata":"https://www.wikidata.org/wiki/Q7397","display_name":"Software","level":2,"score":0.4399985373020172},{"id":"https://openalex.org/C111919701","wikidata":"https://www.wikidata.org/wiki/Q9135","display_name":"Operating system","level":1,"score":0.40546393394470215},{"id":"https://openalex.org/C199360897","wikidata":"https://www.wikidata.org/wiki/Q9143","display_name":"Programming language","level":1,"score":0.27584755420684814},{"id":"https://openalex.org/C127413603","wikidata":"https://www.wikidata.org/wiki/Q11023","display_name":"Engineering","level":0,"score":0.1016198992729187},{"id":"https://openalex.org/C78519656","wikidata":"https://www.wikidata.org/wiki/Q101333","display_name":"Mechanical engineering","level":1,"score":0.0}],"mesh":[],"locations_count":3,"locations":[{"id":"doi:10.1093/bioinformatics/btx392","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btx392","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/33/19/3142/49041259/bioinformatics_33_19_3142.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"is_oa":false,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},{"id":"pmid:28633357","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/28633357","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":"Bioinformatics (Oxford, England)","raw_type":null},{"id":"pmh:oai:pubmedcentral.nih.gov:5870624","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/5870624","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":"Bioinformatics","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1093/bioinformatics/btx392","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btx392","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/33/19/3142/49041259/bioinformatics_33_19_3142.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"is_oa":false,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[{"id":"https://openalex.org/G6671297155","display_name":null,"funder_award_id":"CAREER","funder_id":"https://openalex.org/F4320306076","funder_display_name":"National Science Foundation"},{"id":"https://openalex.org/G7618292881","display_name":"CAREER: Sparse-sampling inference for functional proteomics, metabolomics and ionomics","funder_award_id":"1054826","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"}],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2625100593.pdf","grobid_xml":"https://content.openalex.org/works/W2625100593.grobid-xml"},"referenced_works_count":3,"referenced_works":["https://openalex.org/W1860923284","https://openalex.org/W2009385987","https://openalex.org/W2106855677"],"related_works":["https://openalex.org/W4389426664","https://openalex.org/W2566205467","https://openalex.org/W3012616639","https://openalex.org/W3126000805","https://openalex.org/W3198565742","https://openalex.org/W2010064959","https://openalex.org/W2157390150","https://openalex.org/W2119742499","https://openalex.org/W1985266044","https://openalex.org/W4387011503"],"abstract_inverted_index":{"Summary:":[0],"We":[1,77],"introduce":[2],"matter":[3,24,43,82],",":[4],"an":[5,16],"R":[6],"package":[7,88],"for":[8,28,90],"direct":[9],"interactions":[10],"with":[11,85],"larger-than-memory":[12],"datasets,":[13],"stored":[14],"in":[15,30,74,83,107],"arbitrary":[17],"number":[18],"of":[19,21,48,69,81,92,105,110],"files":[20],"any":[22],"size.":[23],"is":[25,55],"primarily":[26],"designed":[27],"datasets":[29],"new":[31],"and":[32,51,54,71,103],"rapidly":[33],"evolving":[34],"file":[35],"formats,":[36],"which":[37],"may":[38],"lack":[39],"extensive":[40],"software":[41],"support.":[42],"enables":[44],"a":[45],"wide":[46],"variety":[47],"data":[49,73],"exploration":[50],"manipulation":[52],"steps,":[53],"extensible":[56],"to":[57],"many":[58],"bioinformatics":[59,111],"applications.":[60],"It":[61],"supports":[62],"reproducible":[63],"research":[64],"by":[65],"minimizing":[66],"the":[67,79,86,118],"need":[68],"converting":[70],"storing":[72],"multiple":[75],"formats.":[76],"illustrate":[78],"performance":[80],"conjunction":[84],"Bioconductor":[87],"Cardinal":[89],"analysis":[91],"high-resolution,":[93],"high-throughput":[94],"mass":[95],"spectrometry":[96],"imaging":[97],"experiments.":[98],"Availability:":[99],"The":[100],"package,":[101],"vignettes,":[102],"examples":[104],"applications":[106],"several":[108],"areas":[109],"are":[112],"available":[113],"open-source":[114],"at":[115],"www.bioconductor.org":[116],"under":[117],"Artistic-2.0":[119],"license.":[120],"Contact:":[121],"o.vitek@neu.edu.":[122]},"counts_by_year":[{"year":2022,"cited_by_count":1},{"year":2021,"cited_by_count":1},{"year":2020,"cited_by_count":2}],"updated_date":"2026-08-10T07:06:39.071514","created_date":"2025-10-10T00:00:00"}
