{"id":"https://openalex.org/W4244321589","doi":"https://doi.org/10.12688/f1000research.6852.1","title":"CyAnimator: Simple Animations of Cytoscape Networks","display_name":"CyAnimator: Simple Animations of Cytoscape Networks","publication_year":2015,"publication_date":"2015-08-05","ids":{"openalex":"https://openalex.org/W4244321589","doi":"https://doi.org/10.12688/f1000research.6852.1"},"language":"en","primary_location":{"id":"doi:10.12688/f1000research.6852.1","is_oa":true,"landing_page_url":"https://doi.org/10.12688/f1000research.6852.1","pdf_url":"https://f1000research.com/articles/4-482/v1/pdf","source":{"id":"https://openalex.org/S4210239046","display_name":"F1000Research","issn_l":"2046-1402","issn":["2046-1402"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320357","host_organization_name":"Faculty of 1000","host_organization_lineage":["https://openalex.org/P4310320357"],"host_organization_lineage_names":["Faculty of 1000"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"F1000Research","raw_type":"journal-article"},"type":"preprint","indexed_in":["crossref","doaj"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://f1000research.com/articles/4-482/v1/pdf","any_repository_has_fulltext":false},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5054399637","display_name":"John H. Morris","orcid":"https://orcid.org/0000-0003-0290-7979"},"institutions":[{"id":"https://openalex.org/I180670191","display_name":"University of California, San Francisco","ror":"https://ror.org/043mz5j54","country_code":"US","type":"education","lineage":["https://openalex.org/I180670191"]},{"id":"https://openalex.org/I4210151352","display_name":"Biocom","ror":"https://ror.org/03ymdxs56","country_code":"US","type":"nonprofit","lineage":["https://openalex.org/I4210151352"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"John H. Morris","raw_affiliation_strings":["Resource for Biocomputing, Visualization and Informatics,, University of California, San Francisco, CA, 94143"],"raw_orcid":"https://orcid.org/0000-0003-0290-7979","affiliations":[{"raw_affiliation_string":"Resource for Biocomputing, Visualization and Informatics,, University of California, San Francisco, CA, 94143","institution_ids":["https://openalex.org/I4210151352","https://openalex.org/I180670191"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5001530834","display_name":"Vijay Dhameliya","orcid":null},"institutions":[{"id":"https://openalex.org/I98389781","display_name":"Dhirubhai Ambani Institute of Information and Communication Technology","ror":"https://ror.org/02d5b7g69","country_code":"IN","type":"education","lineage":["https://openalex.org/I98389781"]}],"countries":["IN"],"is_corresponding":false,"raw_author_name":"Dhameliya Vijay","raw_affiliation_strings":["Dhirubhai Ambani Institute of Information and Communication Technology, Gujarat"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Dhirubhai Ambani Institute of Information and Communication Technology, Gujarat","institution_ids":["https://openalex.org/I98389781"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5080352257","display_name":"Steven Federowicz","orcid":null},"institutions":[{"id":"https://openalex.org/I923382979","display_name":"ExxonMobil (United States)","ror":"https://ror.org/01xcepn55","country_code":"US","type":"company","lineage":["https://openalex.org/I923382979"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Steven Federowicz","raw_affiliation_strings":["Intrexon Inc., San Diego, CA, 92121"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Intrexon Inc., San Diego, CA, 92121","institution_ids":["https://openalex.org/I923382979"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5070456387","display_name":"Alexander R. Pico","orcid":"https://orcid.org/0000-0001-5706-2163"},"institutions":[{"id":"https://openalex.org/I1321430492","display_name":"Gladstone Institutes","ror":"https://ror.org/038321296","country_code":"US","type":"nonprofit","lineage":["https://openalex.org/I1321430492"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Alexander R. Pico","raw_affiliation_strings":["Gladstone Institutes, San Francisco, CA"],"raw_orcid":"https://orcid.org/0000-0001-5706-2163","affiliations":[{"raw_affiliation_string":"Gladstone Institutes, San Francisco, CA","institution_ids":["https://openalex.org/I1321430492"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5086093811","display_name":"Thomas E. Ferrin","orcid":"https://orcid.org/0000-0001-6227-0637"},"institutions":[{"id":"https://openalex.org/I180670191","display_name":"University of California, San Francisco","ror":"https://ror.org/043mz5j54","country_code":"US","type":"education","lineage":["https://openalex.org/I180670191"]},{"id":"https://openalex.org/I4210151352","display_name":"Biocom","ror":"https://ror.org/03ymdxs56","country_code":"US","type":"nonprofit","lineage":["https://openalex.org/I4210151352"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Thomas E. Ferrin","raw_affiliation_strings":["Resource for Biocomputing, Visualization and Informatics, University of California, San Francisco, CA"],"raw_orcid":"https://orcid.org/0000-0001-6227-0637","affiliations":[{"raw_affiliation_string":"Resource for Biocomputing, Visualization and Informatics, University of California, San Francisco, CA","institution_ids":["https://openalex.org/I4210151352","https://openalex.org/I180670191"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":5,"corresponding_author_ids":["https://openalex.org/A5054399637"],"corresponding_institution_ids":["https://openalex.org/I180670191","https://openalex.org/I4210151352"],"apc_list":{"value":1350,"currency":"USD","value_usd":1350},"apc_paid":{"value":1350,"currency":"USD","value_usd":1350},"fwci":0.3011,"has_fulltext":true,"cited_by_count":7,"citation_normalized_percentile":{"value":0.64329391,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":90,"max":96},"biblio":{"volume":"4","issue":null,"first_page":"482","last_page":"482"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10887","display_name":"Bioinformatics and Genomic Networks","score":0.9886999726295471,"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"}},"topics":[{"id":"https://openalex.org/T10887","display_name":"Bioinformatics and Genomic Networks","score":0.9886999726295471,"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/T13937","display_name":"Genetics, Bioinformatics, and Biomedical Research","score":0.9358000159263611,"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/zoom","display_name":"Zoom","score":0.6488703489303589},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.588758647441864},{"id":"https://openalex.org/keywords/frame","display_name":"Frame (networking)","score":0.5000059604644775},{"id":"https://openalex.org/keywords/node","display_name":"Node (physics)","score":0.4555157721042633},{"id":"https://openalex.org/keywords/animation","display_name":"Animation","score":0.4356037378311157},{"id":"https://openalex.org/keywords/simple","display_name":"Simple (philosophy)","score":0.4285180866718292},{"id":"https://openalex.org/keywords/focus","display_name":"Focus (optics)","score":0.4250110685825348},{"id":"https://openalex.org/keywords/computer-graphics","display_name":"Computer graphics (images)","score":0.38492661714553833},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.2650180459022522},{"id":"https://openalex.org/keywords/engineering","display_name":"Engineering","score":0.07428407669067383}],"concepts":[{"id":"https://openalex.org/C124913957","wikidata":"https://www.wikidata.org/wiki/Q1232548","display_name":"Zoom","level":3,"score":0.6488703489303589},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.588758647441864},{"id":"https://openalex.org/C126042441","wikidata":"https://www.wikidata.org/wiki/Q1324888","display_name":"Frame (networking)","level":2,"score":0.5000059604644775},{"id":"https://openalex.org/C62611344","wikidata":"https://www.wikidata.org/wiki/Q1062658","display_name":"Node (physics)","level":2,"score":0.4555157721042633},{"id":"https://openalex.org/C502989409","wikidata":"https://www.wikidata.org/wiki/Q11425","display_name":"Animation","level":2,"score":0.4356037378311157},{"id":"https://openalex.org/C2780586882","wikidata":"https://www.wikidata.org/wiki/Q7520643","display_name":"Simple (philosophy)","level":2,"score":0.4285180866718292},{"id":"https://openalex.org/C192209626","wikidata":"https://www.wikidata.org/wiki/Q190909","display_name":"Focus (optics)","level":2,"score":0.4250110685825348},{"id":"https://openalex.org/C121684516","wikidata":"https://www.wikidata.org/wiki/Q7600677","display_name":"Computer graphics (images)","level":1,"score":0.38492661714553833},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.2650180459022522},{"id":"https://openalex.org/C127413603","wikidata":"https://www.wikidata.org/wiki/Q11023","display_name":"Engineering","level":0,"score":0.07428407669067383},{"id":"https://openalex.org/C151730666","wikidata":"https://www.wikidata.org/wiki/Q7205","display_name":"Paleontology","level":1,"score":0.0},{"id":"https://openalex.org/C111472728","wikidata":"https://www.wikidata.org/wiki/Q9471","display_name":"Epistemology","level":1,"score":0.0},{"id":"https://openalex.org/C138885662","wikidata":"https://www.wikidata.org/wiki/Q5891","display_name":"Philosophy","level":0,"score":0.0},{"id":"https://openalex.org/C120665830","wikidata":"https://www.wikidata.org/wiki/Q14620","display_name":"Optics","level":1,"score":0.0},{"id":"https://openalex.org/C76155785","wikidata":"https://www.wikidata.org/wiki/Q418","display_name":"Telecommunications","level":1,"score":0.0},{"id":"https://openalex.org/C66938386","wikidata":"https://www.wikidata.org/wiki/Q633538","display_name":"Structural engineering","level":1,"score":0.0},{"id":"https://openalex.org/C121332964","wikidata":"https://www.wikidata.org/wiki/Q413","display_name":"Physics","level":0,"score":0.0},{"id":"https://openalex.org/C15336307","wikidata":"https://www.wikidata.org/wiki/Q1766051","display_name":"Lens (geology)","level":2,"score":0.0}],"mesh":[],"locations_count":1,"locations":[{"id":"doi:10.12688/f1000research.6852.1","is_oa":true,"landing_page_url":"https://doi.org/10.12688/f1000research.6852.1","pdf_url":"https://f1000research.com/articles/4-482/v1/pdf","source":{"id":"https://openalex.org/S4210239046","display_name":"F1000Research","issn_l":"2046-1402","issn":["2046-1402"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320357","host_organization_name":"Faculty of 1000","host_organization_lineage":["https://openalex.org/P4310320357"],"host_organization_lineage_names":["Faculty of 1000"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"F1000Research","raw_type":"journal-article"}],"best_oa_location":{"id":"doi:10.12688/f1000research.6852.1","is_oa":true,"landing_page_url":"https://doi.org/10.12688/f1000research.6852.1","pdf_url":"https://f1000research.com/articles/4-482/v1/pdf","source":{"id":"https://openalex.org/S4210239046","display_name":"F1000Research","issn_l":"2046-1402","issn":["2046-1402"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320357","host_organization_name":"Faculty of 1000","host_organization_lineage":["https://openalex.org/P4310320357"],"host_organization_lineage_names":["Faculty of 1000"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"F1000Research","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[{"id":"https://openalex.org/G1907146399","display_name":null,"funder_award_id":"GM103311","funder_id":"https://openalex.org/F4320337354","funder_display_name":"National Institute of General Medical Sciences"},{"id":"https://openalex.org/G2184545379","display_name":null,"funder_award_id":"P41-GM103311","funder_id":"https://openalex.org/F4320337354","funder_display_name":"National Institute of General Medical Sciences"},{"id":"https://openalex.org/G3316149902","display_name":null,"funder_award_id":"P41-GM103504","funder_id":"https://openalex.org/F4320337354","funder_display_name":"National Institute of General Medical Sciences"},{"id":"https://openalex.org/G4841281783","display_name":null,"funder_award_id":"GM103504","funder_id":"https://openalex.org/F4320337354","funder_display_name":"National Institute of General Medical Sciences"}],"funders":[{"id":"https://openalex.org/F4320337354","display_name":"National Institute of General Medical Sciences","ror":"https://ror.org/04q48ey07"}],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W4244321589.pdf","grobid_xml":"https://content.openalex.org/works/W4244321589.grobid-xml"},"referenced_works_count":7,"referenced_works":["https://openalex.org/W196133328","https://openalex.org/W2007604413","https://openalex.org/W2070040136","https://openalex.org/W2095994132","https://openalex.org/W2148803358","https://openalex.org/W2159675211","https://openalex.org/W2254264666"],"related_works":["https://openalex.org/W2788595494","https://openalex.org/W2244676099","https://openalex.org/W3172556642","https://openalex.org/W3157456843","https://openalex.org/W2036676347","https://openalex.org/W1589307369","https://openalex.org/W2111943219","https://openalex.org/W1778895472","https://openalex.org/W2041677371","https://openalex.org/W2373874394"],"abstract_inverted_index":{"<ns4:p>CyAnimator":[0],"(http://apps.cytoscape.org/apps/cyanimator)":[1],"is":[2,113],"a":[3,8,22,41,45,56,100],"Cytoscape":[4,14,31,118,124],"app":[5,125],"that":[6],"provides":[7],"tool":[9,17],"for":[10],"simple":[11],"animations":[12,95],"of":[13,24,30,40,59,91,102],"networks.":[15,32],"The":[16,94],"allows":[18],"you":[19],"to":[20],"take":[21],"series":[23,101],"snapshots":[25],"(CyAnimator":[26],"calls":[27],"them":[28,74],"frames)":[29],"For":[33],"example,":[34],"the":[35,50,68,77,117,123],"first":[36],"frame":[37,52],"might":[38,53],"be":[39,97],"network":[42],"shown":[43],"from":[44,115,122],"\u201dzoomed":[46],"out\u201d":[47],"viewpoint":[48],"and":[49],"second":[51],"focus":[54],"on":[55],"specific":[57],"group":[58],"nodes.":[60],"Once":[61],"these":[62],"two":[63],"frames":[64],"are":[65],"captured":[66],"by":[67,75],"tool,":[69],"it":[70],"can":[71],"animate":[72],"between":[73],"interpolating":[76],"changes":[78],"in":[79],"location,":[80],"zoom,":[81],"node":[82,84],"color,":[83],"size,":[85],"edge":[86],"thickness,":[87],"presence":[88],"or":[89,109,121],"absence":[90],"annotations,":[92],"etc.":[93],"may":[96],"saved":[98],"as":[99],"individual":[103],"frames,":[104],"animated":[105],"GIFs,":[106],"MP4":[107],"movies,":[108],"H.264/MOV</ns4:p>":[110],"<ns4:p>movies.":[111],"CyAnimator":[112],"available":[114],"within":[116],"App":[119],"Manager":[120],"store.</ns4:p>":[126]},"counts_by_year":[{"year":2024,"cited_by_count":1},{"year":2021,"cited_by_count":2},{"year":2020,"cited_by_count":2},{"year":2018,"cited_by_count":2}],"updated_date":"2026-05-21T06:26:12.895304","created_date":"2025-10-10T00:00:00"}
