{"id":"https://openalex.org/W4406410612","doi":"https://doi.org/10.1093/bioinformatics/btae761","title":"Open Chrono-Morph Viewer: visualize big bioimage time series containing heterogeneous volumes","display_name":"Open Chrono-Morph Viewer: visualize big bioimage time series containing heterogeneous volumes","publication_year":2024,"publication_date":"2024-12-26","ids":{"openalex":"https://openalex.org/W4406410612","doi":"https://doi.org/10.1093/bioinformatics/btae761","pmid":"https://pubmed.ncbi.nlm.nih.gov/39814062"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/btae761","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btae761","pdf_url":"https://academic.oup.com/bioinformatics/advance-article-pdf/doi/10.1093/bioinformatics/btae761/61444830/btae761.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"is_oa":true,"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":"gold","oa_url":"https://academic.oup.com/bioinformatics/advance-article-pdf/doi/10.1093/bioinformatics/btae761/61444830/btae761.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5097740035","display_name":"Andre C. Faubert","orcid":"https://orcid.org/0000-0002-9469-0166"},"institutions":[{"id":"https://openalex.org/I108468826","display_name":"Stevens Institute of Technology","ror":"https://ror.org/02z43xh36","country_code":"US","type":"education","lineage":["https://openalex.org/I108468826"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Andre C Faubert","raw_affiliation_strings":["Department of Biomedical Engineering, Stevens Institute of Technology , Hoboken, NJ 07030,","Department of Biomedical Engineering, Stevens Institute of Technology, Hoboken, NJ 07030, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Biomedical Engineering, Stevens Institute of Technology , Hoboken, NJ 07030,","institution_ids":["https://openalex.org/I108468826"]},{"raw_affiliation_string":"Department of Biomedical Engineering, Stevens Institute of Technology, Hoboken, NJ 07030, USA","institution_ids":["https://openalex.org/I108468826"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5100346377","display_name":"Shang Wang","orcid":"https://orcid.org/0000-0001-9447-719X"},"institutions":[{"id":"https://openalex.org/I108468826","display_name":"Stevens Institute of Technology","ror":"https://ror.org/02z43xh36","country_code":"US","type":"education","lineage":["https://openalex.org/I108468826"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Shang Wang","raw_affiliation_strings":["Department of Biomedical Engineering, Stevens Institute of Technology , Hoboken, NJ 07030,","Department of Biomedical Engineering, Stevens Institute of Technology, Hoboken, NJ 07030, USA"],"raw_orcid":"https://orcid.org/0000-0001-9447-719X","affiliations":[{"raw_affiliation_string":"Department of Biomedical Engineering, Stevens Institute of Technology , Hoboken, NJ 07030,","institution_ids":["https://openalex.org/I108468826"]},{"raw_affiliation_string":"Department of Biomedical Engineering, Stevens Institute of Technology, Hoboken, NJ 07030, USA","institution_ids":["https://openalex.org/I108468826"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":1,"corresponding_author_ids":["https://openalex.org/A5100346377"],"corresponding_institution_ids":["https://openalex.org/I108468826"],"apc_list":{"value":3618,"currency":"USD","value_usd":3618},"apc_paid":{"value":3618,"currency":"USD","value_usd":3618},"fwci":0.9117,"has_fulltext":true,"cited_by_count":2,"citation_normalized_percentile":{"value":0.82209488,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":95,"max":96},"biblio":{"volume":"41","issue":"1","first_page":null,"last_page":null},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T12859","display_name":"Cell Image Analysis Techniques","score":0.901199996471405,"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"}},"topics":[{"id":"https://openalex.org/T12859","display_name":"Cell Image Analysis Techniques","score":0.901199996471405,"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/T10540","display_name":"Advanced Fluorescence Microscopy Techniques","score":0.020099999383091927,"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":0.008700000122189522,"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/computer-science","display_name":"Computer science","score":0.7740495204925537},{"id":"https://openalex.org/keywords/series","display_name":"Series (stratigraphy)","score":0.6156034469604492},{"id":"https://openalex.org/keywords/computer-graphics","display_name":"Computer graphics (images)","score":0.54482102394104},{"id":"https://openalex.org/keywords/visualization","display_name":"Visualization","score":0.5363823771476746},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.4717840850353241},{"id":"https://openalex.org/keywords/software","display_name":"Software","score":0.4424424171447754},{"id":"https://openalex.org/keywords/computer-vision","display_name":"Computer vision","score":0.40950441360473633},{"id":"https://openalex.org/keywords/programming-language","display_name":"Programming language","score":0.16718244552612305},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.07618039846420288}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.7740495204925537},{"id":"https://openalex.org/C143724316","wikidata":"https://www.wikidata.org/wiki/Q312468","display_name":"Series (stratigraphy)","level":2,"score":0.6156034469604492},{"id":"https://openalex.org/C121684516","wikidata":"https://www.wikidata.org/wiki/Q7600677","display_name":"Computer graphics (images)","level":1,"score":0.54482102394104},{"id":"https://openalex.org/C36464697","wikidata":"https://www.wikidata.org/wiki/Q451553","display_name":"Visualization","level":2,"score":0.5363823771476746},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.4717840850353241},{"id":"https://openalex.org/C2777904410","wikidata":"https://www.wikidata.org/wiki/Q7397","display_name":"Software","level":2,"score":0.4424424171447754},{"id":"https://openalex.org/C31972630","wikidata":"https://www.wikidata.org/wiki/Q844240","display_name":"Computer vision","level":1,"score":0.40950441360473633},{"id":"https://openalex.org/C199360897","wikidata":"https://www.wikidata.org/wiki/Q9143","display_name":"Programming language","level":1,"score":0.16718244552612305},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.07618039846420288},{"id":"https://openalex.org/C151730666","wikidata":"https://www.wikidata.org/wiki/Q7205","display_name":"Paleontology","level":1,"score":0.0}],"mesh":[{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"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":"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":"D014584","descriptor_name":"User-Computer Interface","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D014584","descriptor_name":"User-Computer Interface","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D014584","descriptor_name":"User-Computer Interface","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D014584","descriptor_name":"User-Computer Interface","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D014584","descriptor_name":"User-Computer Interface","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D014584","descriptor_name":"User-Computer Interface","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D021621","descriptor_name":"Imaging, Three-Dimensional","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D021621","descriptor_name":"Imaging, Three-Dimensional","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D021621","descriptor_name":"Imaging, Three-Dimensional","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D021621","descriptor_name":"Imaging, Three-Dimensional","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D021621","descriptor_name":"Imaging, Three-Dimensional","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D021621","descriptor_name":"Imaging, Three-Dimensional","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D059008","descriptor_name":"Time-Lapse Imaging","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D059008","descriptor_name":"Time-Lapse Imaging","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D059008","descriptor_name":"Time-Lapse Imaging","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D059008","descriptor_name":"Time-Lapse Imaging","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D059008","descriptor_name":"Time-Lapse Imaging","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D059008","descriptor_name":"Time-Lapse Imaging","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false}],"locations_count":3,"locations":[{"id":"doi:10.1093/bioinformatics/btae761","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btae761","pdf_url":"https://academic.oup.com/bioinformatics/advance-article-pdf/doi/10.1093/bioinformatics/btae761/61444830/btae761.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"is_oa":true,"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:39814062","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/39814062","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:11751631","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/11751631","pdf_url":"https://pmc.ncbi.nlm.nih.gov/articles/PMC11751631/pdf/btae761.pdf","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/btae761","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btae761","pdf_url":"https://academic.oup.com/bioinformatics/advance-article-pdf/doi/10.1093/bioinformatics/btae761/61444830/btae761.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"is_oa":true,"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/G4884244207","display_name":null,"funder_award_id":"R35 GM142953","funder_id":"https://openalex.org/F4320337354","funder_display_name":"National Institute of General Medical Sciences"},{"id":"https://openalex.org/G8885924667","display_name":null,"funder_award_id":"R35GM142953","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"}],"funders":[{"id":"https://openalex.org/F4320332161","display_name":"National Institutes of Health","ror":"https://ror.org/01cwqze88"},{"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/W4406410612.pdf","grobid_xml":"https://content.openalex.org/works/W4406410612.grobid-xml"},"referenced_works_count":9,"referenced_works":["https://openalex.org/W1970480709","https://openalex.org/W1989396876","https://openalex.org/W2037947871","https://openalex.org/W2048109605","https://openalex.org/W2167279371","https://openalex.org/W3201205753","https://openalex.org/W4200144432","https://openalex.org/W4223474966","https://openalex.org/W4285387962"],"related_works":["https://openalex.org/W2068608913","https://openalex.org/W3124914020","https://openalex.org/W2141033859","https://openalex.org/W2156434174","https://openalex.org/W2071701083","https://openalex.org/W2383687187","https://openalex.org/W2081517010","https://openalex.org/W2121496884","https://openalex.org/W2387910809","https://openalex.org/W2736583656"],"abstract_inverted_index":{"SUMMARY:":[0],"Time-lapse":[1],"3D":[2,78],"imaging":[3],"is":[4,91,107,141],"fundamental":[5],"for":[6,30,65,74,85,111,134],"studying":[7],"biological":[8],"processes":[9],"but":[10],"requires":[11],"software":[12],"able":[13],"to":[14,50,99,136],"handle":[15],"terabytes":[16],"of":[17,77],"voxel":[18,32],"data.":[19],"Although":[20],"many":[21],"multidimensional":[22],"viewing":[23],"applications":[24],"exist,":[25],"they":[26],"mostly":[27],"lack":[28],"support":[29],"heterogeneous":[31],"counts,":[33],"datatypes,":[34],"and":[35,80,114,119],"modalities":[36],"in":[37,60,93,125],"a":[38,45,81],"single":[39],"timeline.":[40],"Open":[41],"Chrono-Morph":[42],"Viewer":[43],"provides":[44],"straightforward":[46],"graphical":[47],"user":[48],"interface":[49],"quickly":[51],"investigate":[52],"multi-timescale":[53],"datasets":[54],"represented":[55],"as":[56],"separate":[57],"volume":[58],"files":[59],"the":[61,126],"common":[62,97],"NRRD":[63,138],"format":[64],"compatibility":[66],"between":[67],"toolchains.":[68],"It":[69,90],"features":[70],"dynamic":[71],"clipping":[72],"surfaces":[73],"rapid":[75],"investigation":[76],"morphology":[79],"scriptable":[82],"animation":[83],"API":[84],"quantitative,":[86],"repeatable,":[87],"publication-quality":[88],"visualization.":[89],"implemented":[92],"pure":[94],"Python":[95],"using":[96],"libraries":[98],"facilitate":[100],"community-driven":[101],"development.":[102],"AVAILABILITY":[103],"AND":[104],"IMPLEMENTATION:":[105],"OCMV":[106],"available":[108,142],"at":[109,143],"https://github.com/ShangWangLab/OpenChronoMorphViewer":[110],"Windows,":[112],"Linux,":[113],"macOS.":[115],"Supporting":[116],"tutorials,":[117],"documentation,":[118],"installation":[120],"instructions":[121],"can":[122],"be":[123],"found":[124],"supplementary":[127],"information.":[128],"Our":[129],"modified":[130],"Fiji":[131],"I/O":[132],"plugin":[133],"up":[135],"5D":[137],"file":[139],"conversion":[140],"https://github.com/afaubert/IO.":[144]},"counts_by_year":[{"year":2025,"cited_by_count":2}],"updated_date":"2026-07-18T07:39:51.176621","created_date":"2025-10-10T00:00:00"}
