{"id":"https://openalex.org/W3093146587","doi":"https://doi.org/10.1186/s12859-020-03727-8","title":"EMU: reconfigurable graphical user interfaces for Micro-Manager","display_name":"EMU: reconfigurable graphical user interfaces for Micro-Manager","publication_year":2020,"publication_date":"2020-10-15","ids":{"openalex":"https://openalex.org/W3093146587","doi":"https://doi.org/10.1186/s12859-020-03727-8","mag":"3093146587","pmid":"https://pubmed.ncbi.nlm.nih.gov/33059591"},"language":"en","primary_location":{"id":"doi:10.1186/s12859-020-03727-8","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s12859-020-03727-8","pdf_url":"https://bmcbioinformatics.biomedcentral.com/track/pdf/10.1186/s12859-020-03727-8","source":{"id":"https://openalex.org/S19032547","display_name":"BMC Bioinformatics","issn_l":"1471-2105","issn":["1471-2105"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320256","host_organization_name":"BioMed Central","host_organization_lineage":["https://openalex.org/P4310320256","https://openalex.org/P4310319965"],"host_organization_lineage_names":["BioMed Central","Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"BMC Bioinformatics","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://bmcbioinformatics.biomedcentral.com/track/pdf/10.1186/s12859-020-03727-8","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5056038454","display_name":"J.R. Deschamps","orcid":"https://orcid.org/0000-0001-8462-2883"},"institutions":[{"id":"https://openalex.org/I1303691731","display_name":"European Molecular Biology Organization","ror":"https://ror.org/04wfr2810","country_code":"DE","type":"nonprofit","lineage":["https://openalex.org/I1303691731"]},{"id":"https://openalex.org/I4210153543","display_name":"European Molecular Biology Laboratory","ror":"https://ror.org/050589e39","country_code":"DE","type":"government","lineage":["https://openalex.org/I4210138560","https://openalex.org/I4210153543"]}],"countries":["DE"],"is_corresponding":true,"raw_author_name":"Joran Deschamps","raw_affiliation_strings":["European Molecular Biology Laboratory, Meyerhofstrasse 1, Heidelberg, Germany. joran.deschamps@embl.de","European Molecular Biology Laboratory, Meyerhofstrasse 1, Heidelberg, Germany"],"raw_orcid":"https://orcid.org/0000-0001-8462-2883","affiliations":[{"raw_affiliation_string":"European Molecular Biology Laboratory, Meyerhofstrasse 1, Heidelberg, Germany. joran.deschamps@embl.de","institution_ids":["https://openalex.org/I4210153543","https://openalex.org/I1303691731"]},{"raw_affiliation_string":"European Molecular Biology Laboratory, Meyerhofstrasse 1, Heidelberg, Germany","institution_ids":["https://openalex.org/I4210153543"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5028735345","display_name":"Jonas Ries","orcid":"https://orcid.org/0000-0002-6640-9250"},"institutions":[{"id":"https://openalex.org/I4210153543","display_name":"European Molecular Biology Laboratory","ror":"https://ror.org/050589e39","country_code":"DE","type":"government","lineage":["https://openalex.org/I4210138560","https://openalex.org/I4210153543"]}],"countries":["DE"],"is_corresponding":false,"raw_author_name":"Jonas Ries","raw_affiliation_strings":["European Molecular Biology Laboratory, Meyerhofstrasse 1, Heidelberg, Germany"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"European Molecular Biology Laboratory, Meyerhofstrasse 1, Heidelberg, Germany","institution_ids":["https://openalex.org/I4210153543"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":2,"corresponding_author_ids":["https://openalex.org/A5056038454"],"corresponding_institution_ids":["https://openalex.org/I1303691731","https://openalex.org/I4210153543"],"apc_list":{"value":1690,"currency":"GBP","value_usd":2072},"apc_paid":{"value":1690,"currency":"GBP","value_usd":2072},"fwci":4.7474,"has_fulltext":true,"cited_by_count":32,"citation_normalized_percentile":{"value":0.94865135,"is_in_top_1_percent":false,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":89,"max":99},"biblio":{"volume":"21","issue":"1","first_page":"456","last_page":"456"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T12859","display_name":"Cell Image Analysis Techniques","score":0.5112000107765198,"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":0.5112000107765198,"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/T13114","display_name":"Image Processing Techniques and Applications","score":0.03840000182390213,"subfield":{"id":"https://openalex.org/subfields/2214","display_name":"Media Technology"},"field":{"id":"https://openalex.org/fields/22","display_name":"Engineering"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}},{"id":"https://openalex.org/T12867","display_name":"Advanced Biosensing Techniques and Applications","score":0.035599999129772186,"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/graphical-user-interface","display_name":"Graphical user interface","score":0.8204025626182556},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.7618834972381592},{"id":"https://openalex.org/keywords/plug-in","display_name":"Plug-in","score":0.7115438580513},{"id":"https://openalex.org/keywords/personalization","display_name":"Personalization","score":0.6279563307762146},{"id":"https://openalex.org/keywords/software","display_name":"Software","score":0.5383492708206177},{"id":"https://openalex.org/keywords/user-interface","display_name":"User interface","score":0.4982950687408447},{"id":"https://openalex.org/keywords/interface","display_name":"Interface (matter)","score":0.44401639699935913},{"id":"https://openalex.org/keywords/human\u2013computer-interaction","display_name":"Human\u2013computer interaction","score":0.42154136300086975},{"id":"https://openalex.org/keywords/source-code","display_name":"Source code","score":0.4193539619445801},{"id":"https://openalex.org/keywords/embedded-system","display_name":"Embedded system","score":0.34693706035614014},{"id":"https://openalex.org/keywords/operating-system","display_name":"Operating system","score":0.34597766399383545},{"id":"https://openalex.org/keywords/world-wide-web","display_name":"World Wide Web","score":0.12966188788414001}],"concepts":[{"id":"https://openalex.org/C37789001","wikidata":"https://www.wikidata.org/wiki/Q782543","display_name":"Graphical user interface","level":2,"score":0.8204025626182556},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.7618834972381592},{"id":"https://openalex.org/C4924752","wikidata":"https://www.wikidata.org/wiki/Q184148","display_name":"Plug-in","level":2,"score":0.7115438580513},{"id":"https://openalex.org/C183003079","wikidata":"https://www.wikidata.org/wiki/Q1000371","display_name":"Personalization","level":2,"score":0.6279563307762146},{"id":"https://openalex.org/C2777904410","wikidata":"https://www.wikidata.org/wiki/Q7397","display_name":"Software","level":2,"score":0.5383492708206177},{"id":"https://openalex.org/C89505385","wikidata":"https://www.wikidata.org/wiki/Q47146","display_name":"User interface","level":2,"score":0.4982950687408447},{"id":"https://openalex.org/C113843644","wikidata":"https://www.wikidata.org/wiki/Q901882","display_name":"Interface (matter)","level":4,"score":0.44401639699935913},{"id":"https://openalex.org/C107457646","wikidata":"https://www.wikidata.org/wiki/Q207434","display_name":"Human\u2013computer interaction","level":1,"score":0.42154136300086975},{"id":"https://openalex.org/C43126263","wikidata":"https://www.wikidata.org/wiki/Q128751","display_name":"Source code","level":2,"score":0.4193539619445801},{"id":"https://openalex.org/C149635348","wikidata":"https://www.wikidata.org/wiki/Q193040","display_name":"Embedded system","level":1,"score":0.34693706035614014},{"id":"https://openalex.org/C111919701","wikidata":"https://www.wikidata.org/wiki/Q9135","display_name":"Operating system","level":1,"score":0.34597766399383545},{"id":"https://openalex.org/C136764020","wikidata":"https://www.wikidata.org/wiki/Q466","display_name":"World Wide Web","level":1,"score":0.12966188788414001},{"id":"https://openalex.org/C157915830","wikidata":"https://www.wikidata.org/wiki/Q2928001","display_name":"Bubble","level":2,"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}],"mesh":[{"descriptor_ui":"D008853","descriptor_name":"Microscopy","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008853","descriptor_name":"Microscopy","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008853","descriptor_name":"Microscopy","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008853","descriptor_name":"Microscopy","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":"D014584","descriptor_name":"User-Computer Interface","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":true},{"descriptor_ui":"D014584","descriptor_name":"User-Computer Interface","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":true}],"locations_count":4,"locations":[{"id":"doi:10.1186/s12859-020-03727-8","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s12859-020-03727-8","pdf_url":"https://bmcbioinformatics.biomedcentral.com/track/pdf/10.1186/s12859-020-03727-8","source":{"id":"https://openalex.org/S19032547","display_name":"BMC Bioinformatics","issn_l":"1471-2105","issn":["1471-2105"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320256","host_organization_name":"BioMed Central","host_organization_lineage":["https://openalex.org/P4310320256","https://openalex.org/P4310319965"],"host_organization_lineage_names":["BioMed Central","Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"BMC Bioinformatics","raw_type":"journal-article"},{"id":"pmid:33059591","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/33059591","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":"BMC bioinformatics","raw_type":null},{"id":"pmh:oai:doaj.org/article:4a00c4e448824e839ca0027466df16ce","is_oa":true,"landing_page_url":"https://doaj.org/article/4a00c4e448824e839ca0027466df16ce","pdf_url":null,"source":{"id":"https://openalex.org/S4306401280","display_name":"DOAJ (DOAJ: Directory of Open Access Journals)","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":"cc-by-sa","license_id":"https://openalex.org/licenses/cc-by-sa","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"BMC Bioinformatics, Vol 21, Iss 1, Pp 1-13 (2020)","raw_type":"article"},{"id":"pmh:oai:pubmedcentral.nih.gov:7559757","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/7559757","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":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"BMC Bioinformatics","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1186/s12859-020-03727-8","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s12859-020-03727-8","pdf_url":"https://bmcbioinformatics.biomedcentral.com/track/pdf/10.1186/s12859-020-03727-8","source":{"id":"https://openalex.org/S19032547","display_name":"BMC Bioinformatics","issn_l":"1471-2105","issn":["1471-2105"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320256","host_organization_name":"BioMed Central","host_organization_lineage":["https://openalex.org/P4310320256","https://openalex.org/P4310319965"],"host_organization_lineage_names":["BioMed Central","Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"BMC Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[{"id":"https://openalex.org/G5280301885","display_name":"Mechanical regulated gene expression during T-cell activation","funder_award_id":"RGY0065/2017","funder_id":"https://openalex.org/F4320307846","funder_display_name":"Human Frontier Science Program"},{"id":"https://openalex.org/G6752201360","display_name":null,"funder_award_id":"U01 EB021223","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G7473279875","display_name":null,"funder_award_id":"U01 EB021223","funder_id":"https://openalex.org/F4320337363","funder_display_name":"National Institute of Biomedical Imaging and Bioengineering"}],"funders":[{"id":"https://openalex.org/F4320307846","display_name":"Human Frontier Science Program","ror":"https://ror.org/02ebx7v45"},{"id":"https://openalex.org/F4320332161","display_name":"National Institutes of Health","ror":"https://ror.org/01cwqze88"},{"id":"https://openalex.org/F4320337363","display_name":"National Institute of Biomedical Imaging and Bioengineering","ror":"https://ror.org/00372qc85"}],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W3093146587.pdf","grobid_xml":"https://content.openalex.org/works/W3093146587.grobid-xml"},"referenced_works_count":21,"referenced_works":["https://openalex.org/W1967254083","https://openalex.org/W1984231870","https://openalex.org/W1985220458","https://openalex.org/W1992858116","https://openalex.org/W2054455698","https://openalex.org/W2056942342","https://openalex.org/W2058548803","https://openalex.org/W2099540110","https://openalex.org/W2101336703","https://openalex.org/W2121071682","https://openalex.org/W2136875885","https://openalex.org/W2137753785","https://openalex.org/W2259902722","https://openalex.org/W2556539049","https://openalex.org/W2563756885","https://openalex.org/W2792790956","https://openalex.org/W2805114637","https://openalex.org/W2943584826","https://openalex.org/W2976942992","https://openalex.org/W2996677565","https://openalex.org/W6846274043"],"related_works":["https://openalex.org/W3180179400","https://openalex.org/W2118366689","https://openalex.org/W2624709009","https://openalex.org/W2154998455","https://openalex.org/W2116888309","https://openalex.org/W2477652530","https://openalex.org/W2039055059","https://openalex.org/W2381088774","https://openalex.org/W963721989","https://openalex.org/W2183494409"],"abstract_inverted_index":{"BACKGROUND:":[0],"Advanced":[1],"light":[2],"microscopy":[3],"methods":[4],"are":[5,49,121],"key":[6],"to":[7,40,44,52,77,96,113,124,128,140,173,205,207],"many":[8],"biological":[9],"studies.":[10],"Their":[11],"ease":[12],"of":[13,136,146],"use":[14],"depends,":[15],"besides":[16],"experimental":[17],"aspects,":[18],"on":[19,178],"intuitive":[20,130],"graphical":[21,148],"user":[22,156,176],"interfaces":[23],"(GUI).":[24],"The":[25],"open-source":[26],"software":[27],"Micro-Manager":[28,63,89,94,166],"offers":[29],"a":[30,53,75,93,160,170],"universal":[31],"GUI":[32,76,142],"for":[33,117,187],"microscope":[34,126],"control":[35],"but":[36],"requires":[37,81],"implementing":[38],"plugins":[39],"further":[41],"tailor":[42],"it":[43],"specific":[45],"systems.":[46],"However,":[47],"GUIs":[48,116,120,182,201],"often":[50],"tailored":[51],"single":[54],"system.":[55],"Since":[56],"even":[57],"similar":[58],"devices":[59],"can":[60,104,183],"have":[61,169],"different":[62],"device":[64,138],"properties,":[65],"such":[66,154],"as":[67,155],"power":[68],"percentage":[69],"versus":[70],"absolute":[71],"power,":[72],"directly":[73],"transferring":[74],"another":[78,125],"instrument":[79],"usually":[80],"changing":[82],"the":[83,109,137,141,147,175,197,209],"source-code.":[84],"RESULTS:":[85],"We":[86,150],"developed":[87,200],"Easier":[88],"User":[90],"interface":[91],"(EMU),":[92],"plugin,":[95],"simplify":[97],"building":[98],"flexible":[99],"and":[100,144,157,162,190],"reconfigurable":[101],"GUIs.":[102],"EMU":[103,181,206],"be":[105,184,203],"seamlessly":[106],"used":[107],"with":[108,192],"Java":[110],"Swing":[111],"library":[112],"create":[114],"device-independent":[115],"Micro-Manager.":[118],"Such":[119],"easily":[122,185],"transferred":[123],"thanks":[127],"an":[129],"configuration":[131],"menu":[132],"that":[133],"includes":[134],"mapping":[135],"properties":[139],"functionalities":[143],"customization":[145],"elements.":[149],"also":[151],"provide":[152],"resources":[153],"programming":[158],"guides,":[159],"tutorial":[161],"code":[163],"examples.":[164],"CONCLUSIONS:":[165],"users":[167],"now":[168],"powerful":[171],"tool":[172],"improve":[174],"experience":[177],"their":[179],"instruments.":[180],"configured":[186],"new":[188],"microscopes":[189],"shared":[191],"other":[193],"research":[194],"groups.":[195],"In":[196],"future,":[198],"newly":[199],"will":[202],"added":[204],"benefit":[208],"whole":[210],"community.":[211]},"counts_by_year":[{"year":2026,"cited_by_count":2},{"year":2025,"cited_by_count":3},{"year":2024,"cited_by_count":6},{"year":2023,"cited_by_count":5},{"year":2022,"cited_by_count":10},{"year":2021,"cited_by_count":5},{"year":2020,"cited_by_count":1}],"updated_date":"2026-06-24T13:16:06.693445","created_date":"2025-10-10T00:00:00"}
