{"id":"https://openalex.org/W2761155071","doi":"https://doi.org/10.1093/bioinformatics/btx626","title":"PyDREAM: high-dimensional parameter inference for biological models in python","display_name":"PyDREAM: high-dimensional parameter inference for biological models in python","publication_year":2017,"publication_date":"2017-10-03","ids":{"openalex":"https://openalex.org/W2761155071","doi":"https://doi.org/10.1093/bioinformatics/btx626","mag":"2761155071","pmid":"https://pubmed.ncbi.nlm.nih.gov/29028896"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/btx626","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btx626","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/34/4/695/25117213/btx626.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-nc","license_id":"https://openalex.org/licenses/cc-by-nc","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/34/4/695/25117213/btx626.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5078396343","display_name":"Erin Shockley","orcid":"https://orcid.org/0000-0001-8114-8098"},"institutions":[{"id":"https://openalex.org/I200719446","display_name":"Vanderbilt University","ror":"https://ror.org/02vm5rt34","country_code":"US","type":"education","lineage":["https://openalex.org/I200719446"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Erin M Shockley","raw_affiliation_strings":["Department of Biochemistry, Vanderbilt University, 2215 Garland Avenue, Nashville, TN, USA"],"raw_orcid":"https://orcid.org/0000-0001-8114-8098","affiliations":[{"raw_affiliation_string":"Department of Biochemistry, Vanderbilt University, 2215 Garland Avenue, Nashville, TN, USA","institution_ids":["https://openalex.org/I200719446"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5025871169","display_name":"Jasper A. Vrugt","orcid":"https://orcid.org/0000-0003-2599-1165"},"institutions":[{"id":"https://openalex.org/I204250578","display_name":"University of California, Irvine","ror":"https://ror.org/04gyf1771","country_code":"US","type":"education","lineage":["https://openalex.org/I204250578"]},{"id":"https://openalex.org/I4210140791","display_name":"Irvine University","ror":"https://ror.org/04ysmca02","country_code":"US","type":"education","lineage":["https://openalex.org/I4210140791"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Jasper A Vrugt","raw_affiliation_strings":["Department of Civil and Environmental Engineering, University of California Irvine, 4130 Engineering Gateway, Irvine, CA, USA","Department of Earth System Science, University of California Irvine, 3200 Croul Hall St, Irvine, CA, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Civil and Environmental Engineering, University of California Irvine, 4130 Engineering Gateway, Irvine, CA, USA","institution_ids":["https://openalex.org/I204250578","https://openalex.org/I4210140791"]},{"raw_affiliation_string":"Department of Earth System Science, University of California Irvine, 3200 Croul Hall St, Irvine, CA, USA","institution_ids":["https://openalex.org/I204250578"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5070306403","display_name":"Carlos F. Lopez","orcid":"https://orcid.org/0000-0003-3668-7468"},"institutions":[{"id":"https://openalex.org/I200719446","display_name":"Vanderbilt University","ror":"https://ror.org/02vm5rt34","country_code":"US","type":"education","lineage":["https://openalex.org/I200719446"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Carlos F Lopez","raw_affiliation_strings":["Department of Biochemistry, Vanderbilt University, 2215 Garland Avenue, Nashville, TN, USA"],"raw_orcid":"https://orcid.org/0000-0003-3668-7468","affiliations":[{"raw_affiliation_string":"Department of Biochemistry, Vanderbilt University, 2215 Garland Avenue, Nashville, TN, USA","institution_ids":["https://openalex.org/I200719446"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":3,"corresponding_author_ids":["https://openalex.org/A5070306403"],"corresponding_institution_ids":["https://openalex.org/I200719446"],"apc_list":{"value":3618,"currency":"USD","value_usd":3618},"apc_paid":{"value":3618,"currency":"USD","value_usd":3618},"fwci":4.2475,"has_fulltext":true,"cited_by_count":88,"citation_normalized_percentile":{"value":0.96135396,"is_in_top_1_percent":false,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":96,"max":100},"biblio":{"volume":"34","issue":"4","first_page":"695","last_page":"697"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T12056","display_name":"Markov Chains and Monte Carlo Methods","score":0.4478999972343445,"subfield":{"id":"https://openalex.org/subfields/2613","display_name":"Statistics and Probability"},"field":{"id":"https://openalex.org/fields/26","display_name":"Mathematics"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}},"topics":[{"id":"https://openalex.org/T12056","display_name":"Markov Chains and Monte Carlo Methods","score":0.4478999972343445,"subfield":{"id":"https://openalex.org/subfields/2613","display_name":"Statistics and Probability"},"field":{"id":"https://openalex.org/fields/26","display_name":"Mathematics"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}},{"id":"https://openalex.org/T10621","display_name":"Gene Regulatory Network Analysis","score":0.1412000060081482,"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"}},{"id":"https://openalex.org/T11289","display_name":"Single-cell and spatial transcriptomics","score":0.05950000137090683,"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/python","display_name":"Python (programming language)","score":0.8373544216156006},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.7705742120742798},{"id":"https://openalex.org/keywords/markov-chain-monte-carlo","display_name":"Markov chain Monte Carlo","score":0.6973451375961304},{"id":"https://openalex.org/keywords/inference","display_name":"Inference","score":0.5859315395355225},{"id":"https://openalex.org/keywords/algorithm","display_name":"Algorithm","score":0.39136800169944763},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.3717861771583557},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.20687824487686157},{"id":"https://openalex.org/keywords/programming-language","display_name":"Programming language","score":0.17507052421569824},{"id":"https://openalex.org/keywords/bayesian-probability","display_name":"Bayesian probability","score":0.14875295758247375}],"concepts":[{"id":"https://openalex.org/C519991488","wikidata":"https://www.wikidata.org/wiki/Q28865","display_name":"Python (programming language)","level":2,"score":0.8373544216156006},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.7705742120742798},{"id":"https://openalex.org/C111350023","wikidata":"https://www.wikidata.org/wiki/Q1191869","display_name":"Markov chain Monte Carlo","level":3,"score":0.6973451375961304},{"id":"https://openalex.org/C2776214188","wikidata":"https://www.wikidata.org/wiki/Q408386","display_name":"Inference","level":2,"score":0.5859315395355225},{"id":"https://openalex.org/C11413529","wikidata":"https://www.wikidata.org/wiki/Q8366","display_name":"Algorithm","level":1,"score":0.39136800169944763},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.3717861771583557},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.20687824487686157},{"id":"https://openalex.org/C199360897","wikidata":"https://www.wikidata.org/wiki/Q9143","display_name":"Programming language","level":1,"score":0.17507052421569824},{"id":"https://openalex.org/C107673813","wikidata":"https://www.wikidata.org/wiki/Q812534","display_name":"Bayesian probability","level":2,"score":0.14875295758247375}],"mesh":[{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D002138","descriptor_name":"Calibration","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D002138","descriptor_name":"Calibration","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D002138","descriptor_name":"Calibration","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008390","descriptor_name":"Markov Chains","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D008390","descriptor_name":"Markov Chains","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D008390","descriptor_name":"Markov Chains","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D008954","descriptor_name":"Models, Biological","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D008954","descriptor_name":"Models, Biological","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D008954","descriptor_name":"Models, Biological","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D009010","descriptor_name":"Monte Carlo Method","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D009010","descriptor_name":"Monte Carlo Method","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D009010","descriptor_name":"Monte Carlo Method","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":"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":"D035501","descriptor_name":"Uncertainty","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D035501","descriptor_name":"Uncertainty","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D035501","descriptor_name":"Uncertainty","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false}],"locations_count":6,"locations":[{"id":"doi:10.1093/bioinformatics/btx626","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btx626","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/34/4/695/25117213/btx626.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-nc","license_id":"https://openalex.org/licenses/cc-by-nc","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},{"id":"pmid:29028896","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/29028896","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:osti.gov:1565685","is_oa":true,"landing_page_url":"https://www.osti.gov/biblio/1565685","pdf_url":"https://www.osti.gov/servlets/purl/1565685","source":{"id":"https://openalex.org/S4306402487","display_name":"OSTI OAI (U.S. Department of Energy Office of Scientific and Technical Information)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I139351228","host_organization_name":"Office of Scientific and Technical Information","host_organization_lineage":["https://openalex.org/I139351228"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":null,"raw_type":null},{"id":"pmh:oai:escholarship.org/ark:/13030/qt01z2n01n","is_oa":false,"landing_page_url":"https://escholarship.org/uc/item/01z2n01n","pdf_url":null,"source":{"id":"https://openalex.org/S4306400115","display_name":"eScholarship (California Digital Library)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I2801248553","host_organization_name":"California Digital Library","host_organization_lineage":["https://openalex.org/I2801248553"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Bioinformatics (Oxford, England), vol 34, iss 4","raw_type":"article"},{"id":"pmh:oai:pubmedcentral.nih.gov:5860607","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/5860607","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":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Bioinformatics","raw_type":"Text"},{"id":"pmh:qt01z2n01n","is_oa":false,"landing_page_url":"http://www.escholarship.org/uc/item/01z2n01n","pdf_url":null,"source":{"id":"https://openalex.org/S4306400115","display_name":"eScholarship (California Digital Library)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I2801248553","host_organization_name":"California Digital Library","host_organization_lineage":["https://openalex.org/I2801248553"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Shockley, EM; Vrugt, JA; & Lopez, CF. (2018). PyDREAM: high-dimensional parameter inference for biological models in python. BIOINFORMATICS, 34(4), 695 - 697. doi: 10.1093/bioinformatics/btx626. UC Irvine: Retrieved from: http://www.escholarship.org/uc/item/01z2n01n","raw_type":"article"}],"best_oa_location":{"id":"doi:10.1093/bioinformatics/btx626","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btx626","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/34/4/695/25117213/btx626.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-nc","license_id":"https://openalex.org/licenses/cc-by-nc","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[{"id":"https://openalex.org/G1489425746","display_name":null,"funder_award_id":"DE-AC05-00OR22725","funder_id":"https://openalex.org/F4320332359","funder_display_name":"Office of Science"},{"id":"https://openalex.org/G1498527648","display_name":"A Mechanistic Modeling Framework to Link Biochemical Network Signaling and Cell-Decision Processes","funder_award_id":"1411482","funder_id":"https://openalex.org/F4320306076","funder_display_name":"National Science Foundation"},{"id":"https://openalex.org/G1645119126","display_name":null,"funder_award_id":"AC05-00OR22725","funder_id":"https://openalex.org/F4320306084","funder_display_name":"U.S. Department of Energy"},{"id":"https://openalex.org/G1719536385","display_name":null,"funder_award_id":"DE-AC05-00OR22725","funder_id":"https://openalex.org/F4320306084","funder_display_name":"U.S. Department of Energy"},{"id":"https://openalex.org/G2534798042","display_name":null,"funder_award_id":"T32 GM065086","funder_id":"https://openalex.org/F4320337354","funder_display_name":"National Institute of General Medical Sciences"},{"id":"https://openalex.org/G2584197162","display_name":null,"funder_award_id":"DE-AC05-00OR22725","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G6495930337","display_name":null,"funder_award_id":"DE-AC05-00OR22725","funder_id":"https://openalex.org/F4320306076","funder_display_name":"National Science Foundation"},{"id":"https://openalex.org/G6962970918","display_name":null,"funder_award_id":"MCB-1411482","funder_id":"https://openalex.org/F4320306076","funder_display_name":"National Science Foundation"},{"id":"https://openalex.org/G7186599013","display_name":null,"funder_award_id":"under Contract DE-AC05-00OR22725","funder_id":"https://openalex.org/F4320306084","funder_display_name":"U.S. Department of Energy"},{"id":"https://openalex.org/G7808683748","display_name":null,"funder_award_id":"5T32GM065086","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G7995982022","display_name":null,"funder_award_id":"DE-AC05","funder_id":"https://openalex.org/F4320306084","funder_display_name":"U.S. Department of Energy"},{"id":"https://openalex.org/G8269158468","display_name":null,"funder_award_id":"AC05-00OR22725","funder_id":"https://openalex.org/F4320332359","funder_display_name":"Office of Science"},{"id":"https://openalex.org/G8906985441","display_name":null,"funder_award_id":"00OR22725","funder_id":"https://openalex.org/F4320306084","funder_display_name":"U.S. Department of Energy"}],"funders":[{"id":"https://openalex.org/F4320306076","display_name":"National Science Foundation","ror":"https://ror.org/021nxhr62"},{"id":"https://openalex.org/F4320306084","display_name":"U.S. Department of Energy","ror":"https://ror.org/01bj3aw27"},{"id":"https://openalex.org/F4320332161","display_name":"National Institutes of Health","ror":"https://ror.org/01cwqze88"},{"id":"https://openalex.org/F4320332359","display_name":"Office of Science","ror":"https://ror.org/00mmn6b08"},{"id":"https://openalex.org/F4320337354","display_name":"National Institute of General Medical Sciences","ror":"https://ror.org/04q48ey07"}],"has_content":{"grobid_xml":true,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2761155071.pdf","grobid_xml":"https://content.openalex.org/works/W2761155071.grobid-xml"},"referenced_works_count":23,"referenced_works":["https://openalex.org/W1595159159","https://openalex.org/W1879678483","https://openalex.org/W1883558819","https://openalex.org/W1987761146","https://openalex.org/W2006466539","https://openalex.org/W2013027926","https://openalex.org/W2043276874","https://openalex.org/W2073412813","https://openalex.org/W2097240335","https://openalex.org/W2117681582","https://openalex.org/W2119179880","https://openalex.org/W2123677000","https://openalex.org/W2132071585","https://openalex.org/W2135973421","https://openalex.org/W2140662159","https://openalex.org/W2144661611","https://openalex.org/W2154731971","https://openalex.org/W2155306598","https://openalex.org/W2164554210","https://openalex.org/W2169344843","https://openalex.org/W2173126837","https://openalex.org/W2228538196","https://openalex.org/W6683900177"],"related_works":["https://openalex.org/W2341492732","https://openalex.org/W3187193180","https://openalex.org/W106542691","https://openalex.org/W4287027380","https://openalex.org/W1699080303","https://openalex.org/W4297799326","https://openalex.org/W3116064965","https://openalex.org/W3193760048","https://openalex.org/W4285822516","https://openalex.org/W2551200859"],"abstract_inverted_index":{"Summary:":[0],"Biological":[1],"models":[2,85],"contain":[3],"many":[4],"parameters":[5],"whose":[6],"values":[7],"are":[8,28,130],"difficult":[9],"to":[10,30],"measure":[11],"directly":[12],"via":[13],"experimentation":[14],"and":[15,69,73,75,86,97,105],"therefore":[16],"require":[17],"calibration":[18],"against":[19],"experimental":[20],"data.":[21],"Markov":[22],"chain":[23],"Monte":[24],"Carlo":[25],"(MCMC)":[26],"methods":[27,39],"suitable":[29],"estimate":[31],"multivariate":[32],"posterior":[33],"model":[34],"parameter":[35,95],"distributions,":[36],"but":[37],"these":[38],"may":[40],"exhibit":[41],"slow":[42],"or":[43],"premature":[44],"convergence":[45],"in":[46],"high-dimensional":[47],"search":[48],"spaces.":[49],"Here,":[50],"we":[51],"present":[52],"PyDREAM,":[53],"a":[54],"Python":[55],"implementation":[56],"of":[57,90,100],"the":[58,112,117],"(Multiple-Try)":[59],"Differential":[60],"Evolution":[61],"Adaptive":[62],"Metropolis":[63],"[DREAM(ZS)]":[64],"algorithm":[65],"developed":[66],"by":[67],"Vrugt":[68,76],"ter":[70],"Braak":[71],"(2008)":[72],"Laloy":[74],"(2012).":[77],"PyDREAM":[78,107],"achieves":[79],"excellent":[80],"performance":[81],"for":[82],"complex,":[83],"parameter-rich":[84],"takes":[87],"full":[88],"advantage":[89],"distributed":[91],"computing":[92],"resources,":[93],"facilitating":[94],"inference":[96],"uncertainty":[98],"estimation":[99],"CPU-intensive":[101],"biological":[102],"models.":[103],"Availability":[104],"implementation:":[106],"is":[108],"freely":[109],"available":[110,131],"under":[111],"GNU":[113],"GPLv3":[114],"license":[115],"from":[116],"Lopez":[118],"lab":[119],"GitHub":[120],"repository":[121],"at":[122,132],"http://github.com/LoLab-VU/PyDREAM.":[123],"Contact:":[124],"c.lopez@vanderbilt.edu.":[125],"Supplementary":[126,128],"information:":[127],"data":[129],"Bioinformatics":[133],"online.":[134]},"counts_by_year":[{"year":2026,"cited_by_count":4},{"year":2025,"cited_by_count":12},{"year":2024,"cited_by_count":4},{"year":2023,"cited_by_count":13},{"year":2022,"cited_by_count":22},{"year":2021,"cited_by_count":13},{"year":2020,"cited_by_count":8},{"year":2019,"cited_by_count":9},{"year":2018,"cited_by_count":3}],"updated_date":"2026-07-28T07:46:37.118299","created_date":"2025-10-10T00:00:00"}