{"id":"https://openalex.org/W2181155873","doi":"https://doi.org/10.1093/bioinformatics/btv686","title":"CellTracker (not only) for dummies","display_name":"CellTracker (not only) for dummies","publication_year":2015,"publication_date":"2015-11-20","ids":{"openalex":"https://openalex.org/W2181155873","doi":"https://doi.org/10.1093/bioinformatics/btv686","mag":"2181155873","pmid":"https://pubmed.ncbi.nlm.nih.gov/26589273"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/btv686","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btv686","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/32/6/955/49018376/bioinformatics_32_6_955.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":null,"license_id":null,"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":"bronze","oa_url":"https://academic.oup.com/bioinformatics/article-pdf/32/6/955/49018376/bioinformatics_32_6_955.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5062293774","display_name":"Filippo Piccinini","orcid":"https://orcid.org/0000-0002-0371-7782"},"institutions":[{"id":"https://openalex.org/I9360294","display_name":"University of Bologna","ror":"https://ror.org/01111rn36","country_code":"IT","type":"education","lineage":["https://openalex.org/I9360294"]}],"countries":["IT"],"is_corresponding":false,"raw_author_name":"Filippo Piccinini","raw_affiliation_strings":["1 Advanced Research Center on Electronic Systems for Information and Communication Technologies \u201cE. De Castro\u201d (ARCES), University of Bologna, I-40125 Bologna, Italy,"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"1 Advanced Research Center on Electronic Systems for Information and Communication Technologies \u201cE. De Castro\u201d (ARCES), University of Bologna, I-40125 Bologna, Italy,","institution_ids":["https://openalex.org/I9360294"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5027460973","display_name":"Alexa Kiss","orcid":"https://orcid.org/0000-0003-4384-4396"},"institutions":[{"id":"https://openalex.org/I9360294","display_name":"University of Bologna","ror":"https://ror.org/01111rn36","country_code":"IT","type":"education","lineage":["https://openalex.org/I9360294"]}],"countries":["IT"],"is_corresponding":false,"raw_author_name":"Alexa Kiss","raw_affiliation_strings":["1 Advanced Research Center on Electronic Systems for Information and Communication Technologies \u201cE. De Castro\u201d (ARCES), University of Bologna, I-40125 Bologna, Italy,"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"1 Advanced Research Center on Electronic Systems for Information and Communication Technologies \u201cE. De Castro\u201d (ARCES), University of Bologna, I-40125 Bologna, Italy,","institution_ids":["https://openalex.org/I9360294"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5056154163","display_name":"P\u00e9ter Horv\u00e1th","orcid":"https://orcid.org/0000-0002-4492-1798"},"institutions":[{"id":"https://openalex.org/I133731052","display_name":"University of Helsinki","ror":"https://ror.org/040af2s02","country_code":"FI","type":"education","lineage":["https://openalex.org/I133731052"]},{"id":"https://openalex.org/I2800351701","display_name":"HUN-REN Szegedi Biol\u00f3giai Kutat\u00f3k\u00f6zpont","ror":"https://ror.org/016gb1631","country_code":"HU","type":"facility","lineage":["https://openalex.org/I2800351701","https://openalex.org/I7597260"]},{"id":"https://openalex.org/I4210107997","display_name":"Finland University","ror":"https://ror.org/014rks409","country_code":"FI","type":"education","lineage":["https://openalex.org/I4210107997"]},{"id":"https://openalex.org/I4210133586","display_name":"Institute for Molecular Medicine Finland","ror":"https://ror.org/030sbze61","country_code":"FI","type":"facility","lineage":["https://openalex.org/I133731052","https://openalex.org/I4210133586"]}],"countries":["FI","HU"],"is_corresponding":true,"raw_author_name":"Peter Horvath","raw_affiliation_strings":["3 Synthetic and System Biology Unit, Hungarian Academia of Sciences, Biological Research Center (BRC), H-6726 Szeged, Hungary and","4 Institute for Molecular Medicine Finland, University of Helsinki, FI-00014 Helsinki, Finland"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"3 Synthetic and System Biology Unit, Hungarian Academia of Sciences, Biological Research Center (BRC), H-6726 Szeged, Hungary and","institution_ids":["https://openalex.org/I2800351701"]},{"raw_affiliation_string":"4 Institute for Molecular Medicine Finland, University of Helsinki, FI-00014 Helsinki, Finland","institution_ids":["https://openalex.org/I133731052","https://openalex.org/I4210107997","https://openalex.org/I4210133586"]}]}],"institutions":[],"countries_distinct_count":3,"institutions_distinct_count":5,"corresponding_author_ids":["https://openalex.org/A5056154163"],"corresponding_institution_ids":["https://openalex.org/I133731052","https://openalex.org/I2800351701","https://openalex.org/I4210107997","https://openalex.org/I4210133586"],"apc_list":{"value":3618,"currency":"USD","value_usd":3618},"apc_paid":null,"fwci":8.9962,"has_fulltext":true,"cited_by_count":126,"citation_normalized_percentile":{"value":0.97497614,"is_in_top_1_percent":false,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":97,"max":100},"biblio":{"volume":"32","issue":"6","first_page":"955","last_page":"957"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T12859","display_name":"Cell Image Analysis Techniques","score":0.6840999722480774,"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":0.6840999722480774,"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/T11289","display_name":"Single-cell and spatial transcriptomics","score":0.15060000121593475,"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/T10540","display_name":"Advanced Fluorescence Microscopy Techniques","score":0.045499999076128006,"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"}}],"keywords":[{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.7952195405960083},{"id":"https://openalex.org/keywords/graphical-user-interface","display_name":"Graphical user interface","score":0.7940414547920227},{"id":"https://openalex.org/keywords/unix","display_name":"Unix","score":0.7566563487052917},{"id":"https://openalex.org/keywords/source-code","display_name":"Source code","score":0.685871958732605},{"id":"https://openalex.org/keywords/software","display_name":"Software","score":0.6809588074684143},{"id":"https://openalex.org/keywords/matlab","display_name":"MATLAB","score":0.6185385584831238},{"id":"https://openalex.org/keywords/contrast","display_name":"Contrast (vision)","score":0.5899138450622559},{"id":"https://openalex.org/keywords/mac-os","display_name":"Mac OS","score":0.5647671222686768},{"id":"https://openalex.org/keywords/differential-interference-contrast-microscopy","display_name":"Differential interference contrast microscopy","score":0.5277534127235413},{"id":"https://openalex.org/keywords/interface","display_name":"Interface (matter)","score":0.4885641038417816},{"id":"https://openalex.org/keywords/microsoft-windows","display_name":"Microsoft Windows","score":0.4145236015319824},{"id":"https://openalex.org/keywords/computer-graphics","display_name":"Computer graphics (images)","score":0.41374269127845764},{"id":"https://openalex.org/keywords/human\u2013computer-interaction","display_name":"Human\u2013computer interaction","score":0.40584009885787964},{"id":"https://openalex.org/keywords/operating-system","display_name":"Operating system","score":0.38923361897468567},{"id":"https://openalex.org/keywords/programming-language","display_name":"Programming language","score":0.38008013367652893},{"id":"https://openalex.org/keywords/computer-vision","display_name":"Computer vision","score":0.2981356382369995},{"id":"https://openalex.org/keywords/pathology","display_name":"Pathology","score":0.09915277361869812}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.7952195405960083},{"id":"https://openalex.org/C37789001","wikidata":"https://www.wikidata.org/wiki/Q782543","display_name":"Graphical user interface","level":2,"score":0.7940414547920227},{"id":"https://openalex.org/C112968700","wikidata":"https://www.wikidata.org/wiki/Q11368","display_name":"Unix","level":3,"score":0.7566563487052917},{"id":"https://openalex.org/C43126263","wikidata":"https://www.wikidata.org/wiki/Q128751","display_name":"Source code","level":2,"score":0.685871958732605},{"id":"https://openalex.org/C2777904410","wikidata":"https://www.wikidata.org/wiki/Q7397","display_name":"Software","level":2,"score":0.6809588074684143},{"id":"https://openalex.org/C2780365114","wikidata":"https://www.wikidata.org/wiki/Q169478","display_name":"MATLAB","level":2,"score":0.6185385584831238},{"id":"https://openalex.org/C2776502983","wikidata":"https://www.wikidata.org/wiki/Q690182","display_name":"Contrast (vision)","level":2,"score":0.5899138450622559},{"id":"https://openalex.org/C522133331","wikidata":"https://www.wikidata.org/wiki/Q43627","display_name":"Mac OS","level":3,"score":0.5647671222686768},{"id":"https://openalex.org/C109986877","wikidata":"https://www.wikidata.org/wiki/Q899173","display_name":"Differential interference contrast microscopy","level":3,"score":0.5277534127235413},{"id":"https://openalex.org/C113843644","wikidata":"https://www.wikidata.org/wiki/Q901882","display_name":"Interface (matter)","level":4,"score":0.4885641038417816},{"id":"https://openalex.org/C508378895","wikidata":"https://www.wikidata.org/wiki/Q1406","display_name":"Microsoft Windows","level":3,"score":0.4145236015319824},{"id":"https://openalex.org/C121684516","wikidata":"https://www.wikidata.org/wiki/Q7600677","display_name":"Computer graphics (images)","level":1,"score":0.41374269127845764},{"id":"https://openalex.org/C107457646","wikidata":"https://www.wikidata.org/wiki/Q207434","display_name":"Human\u2013computer interaction","level":1,"score":0.40584009885787964},{"id":"https://openalex.org/C111919701","wikidata":"https://www.wikidata.org/wiki/Q9135","display_name":"Operating system","level":1,"score":0.38923361897468567},{"id":"https://openalex.org/C199360897","wikidata":"https://www.wikidata.org/wiki/Q9143","display_name":"Programming language","level":1,"score":0.38008013367652893},{"id":"https://openalex.org/C31972630","wikidata":"https://www.wikidata.org/wiki/Q844240","display_name":"Computer vision","level":1,"score":0.2981356382369995},{"id":"https://openalex.org/C142724271","wikidata":"https://www.wikidata.org/wiki/Q7208","display_name":"Pathology","level":1,"score":0.09915277361869812},{"id":"https://openalex.org/C157915830","wikidata":"https://www.wikidata.org/wiki/Q2928001","display_name":"Bubble","level":2,"score":0.0},{"id":"https://openalex.org/C71924100","wikidata":"https://www.wikidata.org/wiki/Q11190","display_name":"Medicine","level":0,"score":0.0},{"id":"https://openalex.org/C129307140","wikidata":"https://www.wikidata.org/wiki/Q6795880","display_name":"Maximum bubble pressure method","level":3,"score":0.0},{"id":"https://openalex.org/C147080431","wikidata":"https://www.wikidata.org/wiki/Q1074953","display_name":"Microscopy","level":2,"score":0.0}],"mesh":[{"descriptor_ui":"D007091","descriptor_name":"Image Processing, Computer-Assisted","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D007091","descriptor_name":"Image Processing, Computer-Assisted","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D007091","descriptor_name":"Image Processing, Computer-Assisted","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}],"locations_count":6,"locations":[{"id":"doi:10.1093/bioinformatics/btv686","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btv686","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/32/6/955/49018376/bioinformatics_32_6_955.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":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},{"id":"pmid:26589273","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/26589273","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:real.mtak.hu:49904","is_oa":false,"landing_page_url":null,"pdf_url":null,"source":{"id":"https://openalex.org/S4306400081","display_name":"Repository of the Academy's Library (Library of the Hungarian Academy of Sciences)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I4210140733","host_organization_name":"Library and Information Centre of the Hungarian Academy of Sciences","host_organization_lineage":["https://openalex.org/I4210140733"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"acceptedVersion","is_accepted":true,"is_published":false,"raw_source_name":"","raw_type":"Article"},{"id":"pmh:oai:cris.unibo.it:11585/621883","is_oa":false,"landing_page_url":"http://hdl.handle.net/11585/621883","pdf_url":null,"source":{"id":"https://openalex.org/S4306402579","display_name":"Archivio istituzionale della ricerca (Alma Mater Studiorum Universit\u00e0 di Bologna)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I4210117483","host_organization_name":"Istituto di Ematologia di Bologna","host_organization_lineage":["https://openalex.org/I4210117483"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"","raw_type":"info:eu-repo/semantics/article"},{"id":"pmh:oai:open-archive.highwire.org:bioinfo:32/6/955","is_oa":false,"landing_page_url":"http://bioinformatics.oxfordjournals.org/cgi/content/short/32/6/955","pdf_url":null,"source":{"id":"https://openalex.org/S4406923041","display_name":"HighWire Press Open Archive","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"","raw_type":"TEXT"},{"id":"pmh:oai:zenodo.org:100811","is_oa":true,"landing_page_url":"https://www.openaccessrepository.it/record/100811","pdf_url":null,"source":{"id":"https://openalex.org/S4306402478","display_name":"INFM-OAR (INFN Catania)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I4210116497","host_organization_name":"Istituto Nazionale di Fisica Nucleare, Sezione di Catania","host_organization_lineage":["https://openalex.org/I4210116497"],"host_organization_lineage_names":[],"type":"repository"},"license":"other-oa","license_id":"https://openalex.org/licenses/other-oa","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"","raw_type":"info:eu-repo/semantics/article"}],"best_oa_location":{"id":"doi:10.1093/bioinformatics/btv686","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btv686","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/32/6/955/49018376/bioinformatics_32_6_955.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":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[],"funders":[{"id":"https://openalex.org/F4320321855","display_name":"Tekes","ror":"https://ror.org/02ag8cq23"}],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2181155873.pdf","grobid_xml":"https://content.openalex.org/works/W2181155873.grobid-xml"},"referenced_works_count":16,"referenced_works":["https://openalex.org/W149540474","https://openalex.org/W1970793077","https://openalex.org/W1982170719","https://openalex.org/W1988754065","https://openalex.org/W1989493360","https://openalex.org/W2009275634","https://openalex.org/W2042629182","https://openalex.org/W2069398276","https://openalex.org/W2103706175","https://openalex.org/W2110347960","https://openalex.org/W2131579659","https://openalex.org/W2141273399","https://openalex.org/W2154586169","https://openalex.org/W2167191662","https://openalex.org/W3145128584","https://openalex.org/W4246219036"],"related_works":["https://openalex.org/W634263678","https://openalex.org/W586125253","https://openalex.org/W605022873","https://openalex.org/W1769567533","https://openalex.org/W2501958676","https://openalex.org/W1698445912","https://openalex.org/W2466229648","https://openalex.org/W2471374216","https://openalex.org/W646563222","https://openalex.org/W1486643006"],"abstract_inverted_index":{"MOTIVATION:":[0],"Time-lapse":[1],"experiments":[2],"play":[3],"a":[4,65],"key":[5],"role":[6],"in":[7,58,94],"studying":[8],"the":[9,19,29],"dynamic":[10],"behavior":[11],"of":[12,18,28],"cells.":[13,40],"Single-cell":[14],"tracking":[15,33,71],"is":[16,45,92],"one":[17],"fundamental":[20],"tools":[21],"for":[22,70],"such":[23],"analyses.":[24],"The":[25],"vast":[26],"majority":[27],"recently":[30],"introduced":[31],"cell":[32],"methods":[34],"are":[35,115,126],"limited":[36],"to":[37],"fluorescently":[38],"labeled":[39],"An":[41],"equally":[42],"important":[43],"limitation":[44],"that":[46],"most":[47],"software":[48,68],"cannot":[49],"be":[50],"effectively":[51],"used":[52],"by":[53],"biologists":[54],"without":[55],"reasonable":[56],"expertise":[57],"image":[59],"processing.":[60],"Here":[61],"we":[62],"present":[63],"CellTracker,":[64],"user-friendly":[66],"open-source":[67],"tool":[69],"cells":[72],"imaged":[73],"with":[74,102],"various":[75],"imaging":[76],"modalities,":[77],"including":[78],"fluorescent,":[79],"phase":[80],"contrast":[81,85],"and":[82,105,110],"differential":[83],"interference":[84],"(DIC)":[86],"techniques.":[87],"AVAILABILITY":[88],"AND":[89],"IMPLEMENTATION:":[90],"CellTracker":[91],"written":[93],"MATLAB":[95],"(The":[96],"MathWorks,":[97],"Inc.,":[98],"USA).":[99],"It":[100],"works":[101],"Windows,":[103],"Macintosh":[104],"UNIX-based":[106],"systems.":[107],"Source":[108],"code":[109],"graphical":[111],"user":[112],"interface":[113],"(GUI)":[114],"freely":[116],"available":[117,127],"at:":[118],"http://celltracker.website/":[119],"CONTACT:":[120],"horvath.peter@brc.mta.hu":[121],"SUPPLEMENTARY":[122],"INFORMATION:":[123],"Supplementary":[124],"data":[125],"at":[128],"Bioinformatics":[129],"online.":[130]},"counts_by_year":[{"year":2026,"cited_by_count":2},{"year":2025,"cited_by_count":14},{"year":2024,"cited_by_count":15},{"year":2023,"cited_by_count":13},{"year":2022,"cited_by_count":9},{"year":2021,"cited_by_count":20},{"year":2020,"cited_by_count":17},{"year":2019,"cited_by_count":11},{"year":2018,"cited_by_count":14},{"year":2017,"cited_by_count":7},{"year":2016,"cited_by_count":4}],"updated_date":"2026-08-08T01:25:22.217667","created_date":"2025-10-10T00:00:00"}
