{"id":"https://openalex.org/W3179803024","doi":"https://doi.org/10.21105/joss.03068","title":"Nyx: A Massively Parallel AMR Code for Computational Cosmology","display_name":"Nyx: A Massively Parallel AMR Code for Computational Cosmology","publication_year":2021,"publication_date":"2021-07-10","ids":{"openalex":"https://openalex.org/W3179803024","doi":"https://doi.org/10.21105/joss.03068","mag":"3179803024"},"language":"en","primary_location":{"id":"doi:10.21105/joss.03068","is_oa":true,"landing_page_url":"https://doi.org/10.21105/joss.03068","pdf_url":"https://joss.theoj.org/papers/10.21105/joss.03068.pdf","source":{"id":"https://openalex.org/S4210214273","display_name":"The Journal of Open Source Software","issn_l":"2475-9066","issn":["2475-9066"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310315853","host_organization_name":"Open Journals","host_organization_lineage":["https://openalex.org/P4310315853"],"host_organization_lineage_names":["Open Journals"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Journal of Open Source Software","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj"],"open_access":{"is_oa":true,"oa_status":"diamond","oa_url":"https://joss.theoj.org/papers/10.21105/joss.03068.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5043018876","display_name":"Jean Sexton","orcid":"https://orcid.org/0000-0003-2551-1678"},"institutions":[{"id":"https://openalex.org/I148283060","display_name":"Lawrence Berkeley National Laboratory","ror":"https://ror.org/02jbv0t02","country_code":"US","type":"facility","lineage":["https://openalex.org/I1330989302","https://openalex.org/I148283060","https://openalex.org/I39565521"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Jean Sexton","raw_affiliation_strings":["Center for Computational Sciences and Engineering, Lawrence Berkeley National Laboratory"],"raw_orcid":"https://orcid.org/0000-0003-2551-1678","affiliations":[{"raw_affiliation_string":"Center for Computational Sciences and Engineering, Lawrence Berkeley National Laboratory","institution_ids":["https://openalex.org/I148283060"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5020065129","display_name":"Zarija Luki\u0107","orcid":"https://orcid.org/0000-0003-2257-3742"},"institutions":[{"id":"https://openalex.org/I148283060","display_name":"Lawrence Berkeley National Laboratory","ror":"https://ror.org/02jbv0t02","country_code":"US","type":"facility","lineage":["https://openalex.org/I1330989302","https://openalex.org/I148283060","https://openalex.org/I39565521"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Zarija Lukic","raw_affiliation_strings":["Computational Cosmology Center, Lawrence Berkeley National Laboratory"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Computational Cosmology Center, Lawrence Berkeley National Laboratory","institution_ids":["https://openalex.org/I148283060"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5004099733","display_name":"Ann Almgren","orcid":"https://orcid.org/0000-0003-2103-312X"},"institutions":[{"id":"https://openalex.org/I148283060","display_name":"Lawrence Berkeley National Laboratory","ror":"https://ror.org/02jbv0t02","country_code":"US","type":"facility","lineage":["https://openalex.org/I1330989302","https://openalex.org/I148283060","https://openalex.org/I39565521"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Ann Almgren","raw_affiliation_strings":["Center for Computational Sciences and Engineering, Lawrence Berkeley National Laboratory"],"raw_orcid":"https://orcid.org/0000-0003-2103-312X","affiliations":[{"raw_affiliation_string":"Center for Computational Sciences and Engineering, Lawrence Berkeley National Laboratory","institution_ids":["https://openalex.org/I148283060"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5039454582","display_name":"Christopher Daley","orcid":"https://orcid.org/0000-0003-3105-0804"},"institutions":[{"id":"https://openalex.org/I4210151627","display_name":"National Energy Research Scientific Computing Center","ror":"https://ror.org/05v3mvq14","country_code":"US","type":"facility","lineage":["https://openalex.org/I1330989302","https://openalex.org/I148283060","https://openalex.org/I39565521","https://openalex.org/I4210151627"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Chris Daley","raw_affiliation_strings":["National Energy Research Scientific Computing Center (NERSC), Berkeley, CA, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"National Energy Research Scientific Computing Center (NERSC), Berkeley, CA, USA","institution_ids":["https://openalex.org/I4210151627"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5027682055","display_name":"Brian Friesen","orcid":"https://orcid.org/0000-0002-1572-1631"},"institutions":[{"id":"https://openalex.org/I4210151627","display_name":"National Energy Research Scientific Computing Center","ror":"https://ror.org/05v3mvq14","country_code":"US","type":"facility","lineage":["https://openalex.org/I1330989302","https://openalex.org/I148283060","https://openalex.org/I39565521","https://openalex.org/I4210151627"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Brian Friesen","raw_affiliation_strings":["National Energy Research Scientific Computing Center (NERSC), Berkeley, CA, USA"],"raw_orcid":"https://orcid.org/0000-0002-1572-1631","affiliations":[{"raw_affiliation_string":"National Energy Research Scientific Computing Center (NERSC), Berkeley, CA, USA","institution_ids":["https://openalex.org/I4210151627"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5101697551","display_name":"Andrew Myers","orcid":"https://orcid.org/0000-0001-8427-8330"},"institutions":[{"id":"https://openalex.org/I148283060","display_name":"Lawrence Berkeley National Laboratory","ror":"https://ror.org/02jbv0t02","country_code":"US","type":"facility","lineage":["https://openalex.org/I1330989302","https://openalex.org/I148283060","https://openalex.org/I39565521"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Andrew Myers","raw_affiliation_strings":["Center for Computational Sciences and Engineering, Lawrence Berkeley National Laboratory"],"raw_orcid":"https://orcid.org/0000-0001-8427-8330","affiliations":[{"raw_affiliation_string":"Center for Computational Sciences and Engineering, Lawrence Berkeley National Laboratory","institution_ids":["https://openalex.org/I148283060"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5066669530","display_name":"Weiqun Zhang","orcid":"https://orcid.org/0000-0001-8092-1974"},"institutions":[{"id":"https://openalex.org/I148283060","display_name":"Lawrence Berkeley National Laboratory","ror":"https://ror.org/02jbv0t02","country_code":"US","type":"facility","lineage":["https://openalex.org/I1330989302","https://openalex.org/I148283060","https://openalex.org/I39565521"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Weiqun Zhang","raw_affiliation_strings":["Center for Computational Sciences and Engineering, Lawrence Berkeley National Laboratory"],"raw_orcid":"https://orcid.org/0000-0001-8092-1974","affiliations":[{"raw_affiliation_string":"Center for Computational Sciences and Engineering, Lawrence Berkeley National Laboratory","institution_ids":["https://openalex.org/I148283060"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":7,"corresponding_author_ids":[],"corresponding_institution_ids":[],"apc_list":null,"apc_paid":null,"fwci":2.2873,"has_fulltext":true,"cited_by_count":17,"citation_normalized_percentile":{"value":0.93602447,"is_in_top_1_percent":false,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":96,"max":99},"biblio":{"volume":"6","issue":"63","first_page":"3068","last_page":"3068"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10818","display_name":"Astrophysics and Cosmic Phenomena","score":0.9995999932289124,"subfield":{"id":"https://openalex.org/subfields/3106","display_name":"Nuclear and High Energy Physics"},"field":{"id":"https://openalex.org/fields/31","display_name":"Physics and Astronomy"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}},"topics":[{"id":"https://openalex.org/T10818","display_name":"Astrophysics and Cosmic Phenomena","score":0.9995999932289124,"subfield":{"id":"https://openalex.org/subfields/3106","display_name":"Nuclear and High Energy Physics"},"field":{"id":"https://openalex.org/fields/31","display_name":"Physics and Astronomy"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}},{"id":"https://openalex.org/T10026","display_name":"Galaxies: Formation, Evolution, Phenomena","score":0.9952999949455261,"subfield":{"id":"https://openalex.org/subfields/3103","display_name":"Astronomy and Astrophysics"},"field":{"id":"https://openalex.org/fields/31","display_name":"Physics and Astronomy"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}},{"id":"https://openalex.org/T10921","display_name":"Neutrino Physics Research","score":0.9857000112533569,"subfield":{"id":"https://openalex.org/subfields/3106","display_name":"Nuclear and High Energy Physics"},"field":{"id":"https://openalex.org/fields/31","display_name":"Physics and Astronomy"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/massively-parallel","display_name":"Massively parallel","score":0.8587327003479004},{"id":"https://openalex.org/keywords/cosmology","display_name":"Cosmology","score":0.6371928453445435},{"id":"https://openalex.org/keywords/parallel-computing","display_name":"Parallel computing","score":0.6108842492103577},{"id":"https://openalex.org/keywords/code","display_name":"Code (set theory)","score":0.5593652725219727},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.46147534251213074},{"id":"https://openalex.org/keywords/computational-science","display_name":"Computational science","score":0.3588566780090332},{"id":"https://openalex.org/keywords/physics","display_name":"Physics","score":0.27961695194244385},{"id":"https://openalex.org/keywords/programming-language","display_name":"Programming language","score":0.2672497630119324},{"id":"https://openalex.org/keywords/astrophysics","display_name":"Astrophysics","score":0.18651026487350464}],"concepts":[{"id":"https://openalex.org/C190475519","wikidata":"https://www.wikidata.org/wiki/Q544384","display_name":"Massively parallel","level":2,"score":0.8587327003479004},{"id":"https://openalex.org/C26405456","wikidata":"https://www.wikidata.org/wiki/Q338","display_name":"Cosmology","level":2,"score":0.6371928453445435},{"id":"https://openalex.org/C173608175","wikidata":"https://www.wikidata.org/wiki/Q232661","display_name":"Parallel computing","level":1,"score":0.6108842492103577},{"id":"https://openalex.org/C2776760102","wikidata":"https://www.wikidata.org/wiki/Q5139990","display_name":"Code (set theory)","level":3,"score":0.5593652725219727},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.46147534251213074},{"id":"https://openalex.org/C459310","wikidata":"https://www.wikidata.org/wiki/Q117801","display_name":"Computational science","level":1,"score":0.3588566780090332},{"id":"https://openalex.org/C121332964","wikidata":"https://www.wikidata.org/wiki/Q413","display_name":"Physics","level":0,"score":0.27961695194244385},{"id":"https://openalex.org/C199360897","wikidata":"https://www.wikidata.org/wiki/Q9143","display_name":"Programming language","level":1,"score":0.2672497630119324},{"id":"https://openalex.org/C44870925","wikidata":"https://www.wikidata.org/wiki/Q37547","display_name":"Astrophysics","level":1,"score":0.18651026487350464},{"id":"https://openalex.org/C177264268","wikidata":"https://www.wikidata.org/wiki/Q1514741","display_name":"Set (abstract data type)","level":2,"score":0.0}],"mesh":[],"locations_count":3,"locations":[{"id":"doi:10.21105/joss.03068","is_oa":true,"landing_page_url":"https://doi.org/10.21105/joss.03068","pdf_url":"https://joss.theoj.org/papers/10.21105/joss.03068.pdf","source":{"id":"https://openalex.org/S4210214273","display_name":"The Journal of Open Source Software","issn_l":"2475-9066","issn":["2475-9066"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310315853","host_organization_name":"Open Journals","host_organization_lineage":["https://openalex.org/P4310315853"],"host_organization_lineage_names":["Open Journals"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Journal of Open Source Software","raw_type":"journal-article"},{"id":"pmh:oai:escholarship.org/ark:/13030/qt14w802rp","is_oa":false,"landing_page_url":"https://escholarship.org/uc/item/14w802rp","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":"Journal of Open Source Software, vol 6, iss 63","raw_type":"article"},{"id":"pmh:oai:osti.gov:1827343","is_oa":true,"landing_page_url":"https://www.osti.gov/biblio/1827343","pdf_url":null,"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}],"best_oa_location":{"id":"doi:10.21105/joss.03068","is_oa":true,"landing_page_url":"https://doi.org/10.21105/joss.03068","pdf_url":"https://joss.theoj.org/papers/10.21105/joss.03068.pdf","source":{"id":"https://openalex.org/S4210214273","display_name":"The Journal of Open Source Software","issn_l":"2475-9066","issn":["2475-9066"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310315853","host_organization_name":"Open Journals","host_organization_lineage":["https://openalex.org/P4310315853"],"host_organization_lineage_names":["Open Journals"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Journal of Open Source Software","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[{"id":"https://openalex.org/G1071216263","display_name":null,"funder_award_id":"AC02-05CH11231","funder_id":"https://openalex.org/F4320332369","funder_display_name":"National Nuclear Security Administration"},{"id":"https://openalex.org/G1143651532","display_name":null,"funder_award_id":"DE-AC02-05CH11231","funder_id":"https://openalex.org/F4320338292","funder_display_name":"Lawrence Berkeley National Laboratory"},{"id":"https://openalex.org/G1286236842","display_name":null,"funder_award_id":"-AC02-05CH11231","funder_id":"https://openalex.org/F4320306084","funder_display_name":"U.S. Department of Energy"},{"id":"https://openalex.org/G2857863752","display_name":null,"funder_award_id":"No. DE-AC02-05CH11231","funder_id":"https://openalex.org/F4320338292","funder_display_name":"Lawrence Berkeley National Laboratory"},{"id":"https://openalex.org/G2900453181","display_name":null,"funder_award_id":"DE-AC02-05CH11231","funder_id":"https://openalex.org/F4320332369","funder_display_name":"National Nuclear Security Administration"},{"id":"https://openalex.org/G3083819904","display_name":null,"funder_award_id":"05CH11231","funder_id":"https://openalex.org/F4320306084","funder_display_name":"U.S. Department of Energy"},{"id":"https://openalex.org/G3232922872","display_name":null,"funder_award_id":"17-SC-20-SC","funder_id":"https://openalex.org/F4320332369","funder_display_name":"National Nuclear Security Administration"},{"id":"https://openalex.org/G3944918260","display_name":null,"funder_award_id":"DE-AC02-05CH11231","funder_id":"https://openalex.org/F4320332359","funder_display_name":"Office of Science"},{"id":"https://openalex.org/G4501827968","display_name":null,"funder_award_id":"AC02-05CH11231","funder_id":"https://openalex.org/F4320332359","funder_display_name":"Office of Science"},{"id":"https://openalex.org/G4565140552","display_name":null,"funder_award_id":"-AC02-05CH11231","funder_id":"https://openalex.org/F4320332359","funder_display_name":"Office of Science"},{"id":"https://openalex.org/G498139845","display_name":null,"funder_award_id":"DE-AC02","funder_id":"https://openalex.org/F4320332359","funder_display_name":"Office of Science"},{"id":"https://openalex.org/G542631466","display_name":null,"funder_award_id":"No. DE-AC02-05CH11231","funder_id":"https://openalex.org/F4320306084","funder_display_name":"U.S. Department of Energy"},{"id":"https://openalex.org/G6348972864","display_name":null,"funder_award_id":"AC02-05CH11231","funder_id":"https://openalex.org/F4320306084","funder_display_name":"U.S. Department of Energy"},{"id":"https://openalex.org/G6558272803","display_name":null,"funder_award_id":"DE-AC02","funder_id":"https://openalex.org/F4320306084","funder_display_name":"U.S. Department of Energy"},{"id":"https://openalex.org/G6859237865","display_name":null,"funder_award_id":"17-SC-20-SC","funder_id":"https://openalex.org/F4320306084","funder_display_name":"U.S. Department of Energy"},{"id":"https://openalex.org/G7354628648","display_name":null,"funder_award_id":"05CH11231","funder_id":"https://openalex.org/F4320338292","funder_display_name":"Lawrence Berkeley National Laboratory"},{"id":"https://openalex.org/G7672463193","display_name":null,"funder_award_id":"No. DE-AC02-05CH11231","funder_id":"https://openalex.org/F4320332359","funder_display_name":"Office of Science"},{"id":"https://openalex.org/G8253304997","display_name":null,"funder_award_id":"17-SC-20-SC","funder_id":"https://openalex.org/F4320332359","funder_display_name":"Office of Science"},{"id":"https://openalex.org/G8306346728","display_name":null,"funder_award_id":"AC02-05CH11231","funder_id":"https://openalex.org/F4320338292","funder_display_name":"Lawrence Berkeley National Laboratory"},{"id":"https://openalex.org/G969889393","display_name":null,"funder_award_id":"DE-AC02-","funder_id":"https://openalex.org/F4320306084","funder_display_name":"U.S. Department of Energy"}],"funders":[{"id":"https://openalex.org/F4320306084","display_name":"U.S. Department of Energy","ror":"https://ror.org/01bj3aw27"},{"id":"https://openalex.org/F4320332359","display_name":"Office of Science","ror":"https://ror.org/00mmn6b08"},{"id":"https://openalex.org/F4320332369","display_name":"National Nuclear Security Administration","ror":"https://ror.org/03sk1we31"},{"id":"https://openalex.org/F4320338292","display_name":"Lawrence Berkeley National Laboratory","ror":"https://ror.org/02jbv0t02"}],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W3179803024.pdf","grobid_xml":"https://content.openalex.org/works/W3179803024.grobid-xml"},"referenced_works_count":29,"referenced_works":["https://openalex.org/W1978574709","https://openalex.org/W2011324636","https://openalex.org/W2015816799","https://openalex.org/W2049161806","https://openalex.org/W2049440937","https://openalex.org/W2073945818","https://openalex.org/W2078794610","https://openalex.org/W2101349161","https://openalex.org/W2102852529","https://openalex.org/W2108433712","https://openalex.org/W2161078062","https://openalex.org/W2168261161","https://openalex.org/W2414242900","https://openalex.org/W2725031412","https://openalex.org/W2895879881","https://openalex.org/W2898531166","https://openalex.org/W2944412207","https://openalex.org/W2963931059","https://openalex.org/W2972734562","https://openalex.org/W2989994631","https://openalex.org/W2996807164","https://openalex.org/W3035570547","https://openalex.org/W3084493437","https://openalex.org/W3092395542","https://openalex.org/W3102649671","https://openalex.org/W3104308872","https://openalex.org/W3104976051","https://openalex.org/W3161734310","https://openalex.org/W4293241892"],"related_works":["https://openalex.org/W2057488824","https://openalex.org/W1774183074","https://openalex.org/W2334687145","https://openalex.org/W2178011914","https://openalex.org/W4235962491","https://openalex.org/W2061778832","https://openalex.org/W1513001507","https://openalex.org/W3134702077","https://openalex.org/W2167527468","https://openalex.org/W2056396287"],"abstract_inverted_index":{"Nyx":[0],"is":[1],"a":[2,25],"highly":[3],"parallel,":[4],"adaptive":[5],"mesh,":[6],"finite-volume":[7],"N-body":[8],"compressible":[9,39],"hydrodynamics":[10],"solver":[11],"for":[12],"cosmological":[13,22],"simulations.":[14],"It":[15],"has":[16],"been":[17],"used":[18],"to":[19],"simulate":[20],"different":[21],"scenarios":[23],"with":[24],"recent":[26],"focus":[27],"on":[28],"the":[29,38],"intergalactic":[30],"medium":[31],"and":[32],"Lyman":[33],"alpha":[34],"forest.":[35],"Together,":[36],"Nyx,":[37],"astrophysical":[40],"simulation":[41],"code,":[42],"Castro":[43]},"counts_by_year":[{"year":2025,"cited_by_count":8},{"year":2024,"cited_by_count":3},{"year":2023,"cited_by_count":3},{"year":2022,"cited_by_count":3}],"updated_date":"2026-06-16T09:24:06.705377","created_date":"2025-10-10T00:00:00"}
