{"id":"https://openalex.org/W2811381316","doi":"https://doi.org/10.1186/s12859-018-2227-x","title":"ToTem: a tool for variant calling pipeline optimization","display_name":"ToTem: a tool for variant calling pipeline optimization","publication_year":2018,"publication_date":"2018-06-25","ids":{"openalex":"https://openalex.org/W2811381316","doi":"https://doi.org/10.1186/s12859-018-2227-x","mag":"2811381316","pmid":"https://pubmed.ncbi.nlm.nih.gov/29940847"},"language":"en","primary_location":{"id":"doi:10.1186/s12859-018-2227-x","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s12859-018-2227-x","pdf_url":"https://bmcbioinformatics.biomedcentral.com/track/pdf/10.1186/s12859-018-2227-x","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/s12859-018-2227-x","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5021107430","display_name":"Nikola Tom","orcid":"https://orcid.org/0000-0001-7440-0515"},"institutions":[{"id":"https://openalex.org/I1310815967","display_name":"Central European Institute of Technology","ror":"https://ror.org/01p7k1986","country_code":"CZ","type":"education","lineage":["https://openalex.org/I1310815967"]},{"id":"https://openalex.org/I21449261","display_name":"Masaryk University","ror":"https://ror.org/02j46qs45","country_code":"CZ","type":"education","lineage":["https://openalex.org/I21449261"]},{"id":"https://openalex.org/I4210090417","display_name":"Central European Institute of Technology \u2013 Masaryk University","ror":"https://ror.org/009nz6031","country_code":"CZ","type":"education","lineage":["https://openalex.org/I1310815967","https://openalex.org/I21449261","https://openalex.org/I4210090417"]},{"id":"https://openalex.org/I4210102302","display_name":"University Hospital Brno","ror":"https://ror.org/00qq1fp34","country_code":"CZ","type":"healthcare","lineage":["https://openalex.org/I4210102302"]}],"countries":["CZ"],"is_corresponding":true,"raw_author_name":"Nikola Tom","raw_affiliation_strings":["Center of Molecular Medicine, Central European Institute of Technology, Masaryk University, Brno, Czech Republic","Department of Internal Medicine - Hematology and Oncology, Medical Faculty, Masaryk University and University Hospital Brno, Brno, Czech Republic"],"affiliations":[{"raw_affiliation_string":"Center of Molecular Medicine, Central European Institute of Technology, Masaryk University, Brno, Czech Republic","institution_ids":["https://openalex.org/I1310815967","https://openalex.org/I4210090417"]},{"raw_affiliation_string":"Department of Internal Medicine - Hematology and Oncology, Medical Faculty, Masaryk University and University Hospital Brno, Brno, Czech Republic","institution_ids":["https://openalex.org/I21449261","https://openalex.org/I4210102302"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5000274712","display_name":"Ond\u0159ej Tom","orcid":null},"institutions":[{"id":"https://openalex.org/I70703428","display_name":"Palack\u00fd University Olomouc","ror":"https://ror.org/04qxnmv42","country_code":"CZ","type":"education","lineage":["https://openalex.org/I70703428"]}],"countries":["CZ"],"is_corresponding":false,"raw_author_name":"Ondrej Tom","raw_affiliation_strings":["Department of Computer Science, Faculty of Science, Palacky University, Olomouc, Czech Republic"],"affiliations":[{"raw_affiliation_string":"Department of Computer Science, Faculty of Science, Palacky University, Olomouc, Czech Republic","institution_ids":["https://openalex.org/I70703428"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5038787111","display_name":"Jitka Mal\u010d\u00edkov\u00e1","orcid":"https://orcid.org/0000-0003-3650-6698"},"institutions":[{"id":"https://openalex.org/I1310815967","display_name":"Central European Institute of Technology","ror":"https://ror.org/01p7k1986","country_code":"CZ","type":"education","lineage":["https://openalex.org/I1310815967"]},{"id":"https://openalex.org/I21449261","display_name":"Masaryk University","ror":"https://ror.org/02j46qs45","country_code":"CZ","type":"education","lineage":["https://openalex.org/I21449261"]},{"id":"https://openalex.org/I4210090417","display_name":"Central European Institute of Technology \u2013 Masaryk University","ror":"https://ror.org/009nz6031","country_code":"CZ","type":"education","lineage":["https://openalex.org/I1310815967","https://openalex.org/I21449261","https://openalex.org/I4210090417"]},{"id":"https://openalex.org/I4210102302","display_name":"University Hospital Brno","ror":"https://ror.org/00qq1fp34","country_code":"CZ","type":"healthcare","lineage":["https://openalex.org/I4210102302"]}],"countries":["CZ"],"is_corresponding":false,"raw_author_name":"Jitka Malcikova","raw_affiliation_strings":["Center of Molecular Medicine, Central European Institute of Technology, Masaryk University, Brno, Czech Republic","Department of Internal Medicine - Hematology and Oncology, Medical Faculty, Masaryk University and University Hospital Brno, Brno, Czech Republic"],"affiliations":[{"raw_affiliation_string":"Center of Molecular Medicine, Central European Institute of Technology, Masaryk University, Brno, Czech Republic","institution_ids":["https://openalex.org/I1310815967","https://openalex.org/I4210090417"]},{"raw_affiliation_string":"Department of Internal Medicine - Hematology and Oncology, Medical Faculty, Masaryk University and University Hospital Brno, Brno, Czech Republic","institution_ids":["https://openalex.org/I21449261","https://openalex.org/I4210102302"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5008452187","display_name":"\u0160\u00e1rka Pavlov\u00e1","orcid":"https://orcid.org/0000-0003-1528-9743"},"institutions":[{"id":"https://openalex.org/I1310815967","display_name":"Central European Institute of Technology","ror":"https://ror.org/01p7k1986","country_code":"CZ","type":"education","lineage":["https://openalex.org/I1310815967"]},{"id":"https://openalex.org/I21449261","display_name":"Masaryk University","ror":"https://ror.org/02j46qs45","country_code":"CZ","type":"education","lineage":["https://openalex.org/I21449261"]},{"id":"https://openalex.org/I4210090417","display_name":"Central European Institute of Technology \u2013 Masaryk University","ror":"https://ror.org/009nz6031","country_code":"CZ","type":"education","lineage":["https://openalex.org/I1310815967","https://openalex.org/I21449261","https://openalex.org/I4210090417"]},{"id":"https://openalex.org/I4210102302","display_name":"University Hospital Brno","ror":"https://ror.org/00qq1fp34","country_code":"CZ","type":"healthcare","lineage":["https://openalex.org/I4210102302"]}],"countries":["CZ"],"is_corresponding":false,"raw_author_name":"Sarka Pavlova","raw_affiliation_strings":["Center of Molecular Medicine, Central European Institute of Technology, Masaryk University, Brno, Czech Republic","Department of Internal Medicine - Hematology and Oncology, Medical Faculty, Masaryk University and University Hospital Brno, Brno, Czech Republic"],"affiliations":[{"raw_affiliation_string":"Center of Molecular Medicine, Central European Institute of Technology, Masaryk University, Brno, Czech Republic","institution_ids":["https://openalex.org/I1310815967","https://openalex.org/I4210090417"]},{"raw_affiliation_string":"Department of Internal Medicine - Hematology and Oncology, Medical Faculty, Masaryk University and University Hospital Brno, Brno, Czech Republic","institution_ids":["https://openalex.org/I21449261","https://openalex.org/I4210102302"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5080489970","display_name":"Blanka Kube\u0161ov\u00e1","orcid":null},"institutions":[{"id":"https://openalex.org/I21449261","display_name":"Masaryk University","ror":"https://ror.org/02j46qs45","country_code":"CZ","type":"education","lineage":["https://openalex.org/I21449261"]},{"id":"https://openalex.org/I4210102302","display_name":"University Hospital Brno","ror":"https://ror.org/00qq1fp34","country_code":"CZ","type":"healthcare","lineage":["https://openalex.org/I4210102302"]}],"countries":["CZ"],"is_corresponding":false,"raw_author_name":"Blanka Kubesova","raw_affiliation_strings":["Department of Internal Medicine - Hematology and Oncology, Medical Faculty, Masaryk University and University Hospital Brno, Brno, Czech Republic"],"affiliations":[{"raw_affiliation_string":"Department of Internal Medicine - Hematology and Oncology, Medical Faculty, Masaryk University and University Hospital Brno, Brno, Czech Republic","institution_ids":["https://openalex.org/I21449261","https://openalex.org/I4210102302"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5038740400","display_name":"Tobias Rausch","orcid":"https://orcid.org/0000-0001-5773-5620"},"institutions":[{"id":"https://openalex.org/I4210138560","display_name":"European Molecular Biology Laboratory","ror":"https://ror.org/03mstc592","country_code":"DE","type":"government","lineage":["https://openalex.org/I4210138560"]}],"countries":["DE"],"is_corresponding":false,"raw_author_name":"Tobias Rausch","raw_affiliation_strings":["Genomics Core Facility, European Molecular Biology Laboratory, Heidelberg, Germany"],"affiliations":[{"raw_affiliation_string":"Genomics Core Facility, European Molecular Biology Laboratory, Heidelberg, Germany","institution_ids":["https://openalex.org/I4210138560"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5101950308","display_name":"Miroslav Kola\u0159\u00edk","orcid":"https://orcid.org/0000-0002-0641-4584"},"institutions":[{"id":"https://openalex.org/I70703428","display_name":"Palack\u00fd University Olomouc","ror":"https://ror.org/04qxnmv42","country_code":"CZ","type":"education","lineage":["https://openalex.org/I70703428"]}],"countries":["CZ"],"is_corresponding":false,"raw_author_name":"Miroslav Kolarik","raw_affiliation_strings":["Department of Computer Science, Faculty of Science, Palacky University, Olomouc, Czech Republic"],"affiliations":[{"raw_affiliation_string":"Department of Computer Science, Faculty of Science, Palacky University, Olomouc, Czech Republic","institution_ids":["https://openalex.org/I70703428"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5048071608","display_name":"Vladim\u0131\u0301r Bene\u0161","orcid":"https://orcid.org/0000-0002-0352-2547"},"institutions":[{"id":"https://openalex.org/I4210138560","display_name":"European Molecular Biology Laboratory","ror":"https://ror.org/03mstc592","country_code":"DE","type":"government","lineage":["https://openalex.org/I4210138560"]}],"countries":["DE"],"is_corresponding":false,"raw_author_name":"Vladimir Benes","raw_affiliation_strings":["Genomics Core Facility, European Molecular Biology Laboratory, Heidelberg, Germany"],"affiliations":[{"raw_affiliation_string":"Genomics Core Facility, European Molecular Biology Laboratory, Heidelberg, Germany","institution_ids":["https://openalex.org/I4210138560"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5011554252","display_name":"Vojt\u011bch Bystr\u00fd","orcid":"https://orcid.org/0000-0001-5278-0801"},"institutions":[{"id":"https://openalex.org/I1310815967","display_name":"Central European Institute of Technology","ror":"https://ror.org/01p7k1986","country_code":"CZ","type":"education","lineage":["https://openalex.org/I1310815967"]},{"id":"https://openalex.org/I4210090417","display_name":"Central European Institute of Technology \u2013 Masaryk University","ror":"https://ror.org/009nz6031","country_code":"CZ","type":"education","lineage":["https://openalex.org/I1310815967","https://openalex.org/I21449261","https://openalex.org/I4210090417"]}],"countries":["CZ"],"is_corresponding":false,"raw_author_name":"Vojtech Bystry","raw_affiliation_strings":["Center of Molecular Medicine, Central European Institute of Technology, Masaryk University, Brno, Czech Republic. vojtech.bystry@ceitec.muni.cz","Center of Molecular Medicine, Central European Institute of Technology, Masaryk University, Brno, Czech Republic"],"affiliations":[{"raw_affiliation_string":"Center of Molecular Medicine, Central European Institute of Technology, Masaryk University, Brno, Czech Republic. vojtech.bystry@ceitec.muni.cz","institution_ids":["https://openalex.org/I1310815967"]},{"raw_affiliation_string":"Center of Molecular Medicine, Central European Institute of Technology, Masaryk University, Brno, Czech Republic","institution_ids":["https://openalex.org/I1310815967","https://openalex.org/I4210090417"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5071015212","display_name":"\u0160\u00e1rka Posp\u0131\u0301\u0161ilov\u00e1","orcid":"https://orcid.org/0000-0001-7136-2680"},"institutions":[{"id":"https://openalex.org/I1310815967","display_name":"Central European Institute of Technology","ror":"https://ror.org/01p7k1986","country_code":"CZ","type":"education","lineage":["https://openalex.org/I1310815967"]},{"id":"https://openalex.org/I21449261","display_name":"Masaryk University","ror":"https://ror.org/02j46qs45","country_code":"CZ","type":"education","lineage":["https://openalex.org/I21449261"]},{"id":"https://openalex.org/I4210102302","display_name":"University Hospital Brno","ror":"https://ror.org/00qq1fp34","country_code":"CZ","type":"healthcare","lineage":["https://openalex.org/I4210102302"]}],"countries":["CZ"],"is_corresponding":false,"raw_author_name":"Sarka Pospisilova","raw_affiliation_strings":["Center of Molecular Medicine, Central European Institute of Technology, Masaryk University, Brno, Czech Republic. pospisilova.sarka@fnbrno.cz","Department of Internal Medicine - Hematology and Oncology, Medical Faculty, Masaryk University and University Hospital Brno, Brno, Czech Republic. pospisilova.sarka@fnbrno.cz","Department of Internal Medicine - Hematology and Oncology, Medical Faculty, Masaryk University and University Hospital Brno, Brno, Czech Republic"],"affiliations":[{"raw_affiliation_string":"Center of Molecular Medicine, Central European Institute of Technology, Masaryk University, Brno, Czech Republic. pospisilova.sarka@fnbrno.cz","institution_ids":["https://openalex.org/I1310815967"]},{"raw_affiliation_string":"Department of Internal Medicine - Hematology and Oncology, Medical Faculty, Masaryk University and University Hospital Brno, Brno, Czech Republic. pospisilova.sarka@fnbrno.cz","institution_ids":["https://openalex.org/I21449261","https://openalex.org/I4210102302"]},{"raw_affiliation_string":"Department of Internal Medicine - Hematology and Oncology, Medical Faculty, Masaryk University and University Hospital Brno, Brno, Czech Republic","institution_ids":["https://openalex.org/I21449261","https://openalex.org/I4210102302"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":10,"corresponding_author_ids":["https://openalex.org/A5021107430"],"corresponding_institution_ids":["https://openalex.org/I1310815967","https://openalex.org/I21449261","https://openalex.org/I4210090417","https://openalex.org/I4210102302"],"apc_list":{"value":1690,"currency":"GBP","value_usd":2072},"apc_paid":{"value":1690,"currency":"GBP","value_usd":2072},"fwci":0.0931,"has_fulltext":true,"cited_by_count":2,"citation_normalized_percentile":{"value":0.47774066,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":94},"biblio":{"volume":"19","issue":"1","first_page":"243","last_page":"243"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10015","display_name":"Genomics and Phylogenetic Studies","score":0.9993000030517578,"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/T10015","display_name":"Genomics and Phylogenetic Studies","score":0.9993000030517578,"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/T11287","display_name":"Cancer Genomics and Diagnostics","score":0.9987999796867371,"subfield":{"id":"https://openalex.org/subfields/1306","display_name":"Cancer Research"},"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/T11642","display_name":"Genomics and Rare Diseases","score":0.994700014591217,"subfield":{"id":"https://openalex.org/subfields/1311","display_name":"Genetics"},"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/totem","display_name":"Totem","score":0.9083101749420166},{"id":"https://openalex.org/keywords/pipeline","display_name":"Pipeline (software)","score":0.8478822708129883},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.7014732360839844},{"id":"https://openalex.org/keywords/interface","display_name":"Interface (matter)","score":0.5114137530326843},{"id":"https://openalex.org/keywords/software","display_name":"Software","score":0.483949214220047},{"id":"https://openalex.org/keywords/precision-and-recall","display_name":"Precision and recall","score":0.4707026481628418},{"id":"https://openalex.org/keywords/graphical-user-interface","display_name":"Graphical user interface","score":0.46972811222076416},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.46436330676078796},{"id":"https://openalex.org/keywords/process","display_name":"Process (computing)","score":0.44740796089172363},{"id":"https://openalex.org/keywords/java","display_name":"Java","score":0.4321556091308594},{"id":"https://openalex.org/keywords/source-code","display_name":"Source code","score":0.4319690763950348},{"id":"https://openalex.org/keywords/benchmark","display_name":"Benchmark (surveying)","score":0.4277487099170685},{"id":"https://openalex.org/keywords/operating-system","display_name":"Operating system","score":0.27083712816238403},{"id":"https://openalex.org/keywords/information-retrieval","display_name":"Information retrieval","score":0.19377323985099792}],"concepts":[{"id":"https://openalex.org/C2780298517","wikidata":"https://www.wikidata.org/wiki/Q263443","display_name":"Totem","level":2,"score":0.9083101749420166},{"id":"https://openalex.org/C43521106","wikidata":"https://www.wikidata.org/wiki/Q2165493","display_name":"Pipeline (software)","level":2,"score":0.8478822708129883},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.7014732360839844},{"id":"https://openalex.org/C113843644","wikidata":"https://www.wikidata.org/wiki/Q901882","display_name":"Interface (matter)","level":4,"score":0.5114137530326843},{"id":"https://openalex.org/C2777904410","wikidata":"https://www.wikidata.org/wiki/Q7397","display_name":"Software","level":2,"score":0.483949214220047},{"id":"https://openalex.org/C81669768","wikidata":"https://www.wikidata.org/wiki/Q2359161","display_name":"Precision and recall","level":2,"score":0.4707026481628418},{"id":"https://openalex.org/C37789001","wikidata":"https://www.wikidata.org/wiki/Q782543","display_name":"Graphical user interface","level":2,"score":0.46972811222076416},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.46436330676078796},{"id":"https://openalex.org/C98045186","wikidata":"https://www.wikidata.org/wiki/Q205663","display_name":"Process (computing)","level":2,"score":0.44740796089172363},{"id":"https://openalex.org/C548217200","wikidata":"https://www.wikidata.org/wiki/Q251","display_name":"Java","level":2,"score":0.4321556091308594},{"id":"https://openalex.org/C43126263","wikidata":"https://www.wikidata.org/wiki/Q128751","display_name":"Source code","level":2,"score":0.4319690763950348},{"id":"https://openalex.org/C185798385","wikidata":"https://www.wikidata.org/wiki/Q1161707","display_name":"Benchmark (surveying)","level":2,"score":0.4277487099170685},{"id":"https://openalex.org/C111919701","wikidata":"https://www.wikidata.org/wiki/Q9135","display_name":"Operating system","level":1,"score":0.27083712816238403},{"id":"https://openalex.org/C23123220","wikidata":"https://www.wikidata.org/wiki/Q816826","display_name":"Information retrieval","level":1,"score":0.19377323985099792},{"id":"https://openalex.org/C19165224","wikidata":"https://www.wikidata.org/wiki/Q23404","display_name":"Anthropology","level":1,"score":0.0},{"id":"https://openalex.org/C205649164","wikidata":"https://www.wikidata.org/wiki/Q1071","display_name":"Geography","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/C13280743","wikidata":"https://www.wikidata.org/wiki/Q131089","display_name":"Geodesy","level":1,"score":0.0},{"id":"https://openalex.org/C144024400","wikidata":"https://www.wikidata.org/wiki/Q21201","display_name":"Sociology","level":0,"score":0.0},{"id":"https://openalex.org/C157915830","wikidata":"https://www.wikidata.org/wiki/Q2928001","display_name":"Bubble","level":2,"score":0.0}],"mesh":[{"descriptor_ui":"D012107","descriptor_name":"Research Design","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012107","descriptor_name":"Research Design","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012107","descriptor_name":"Research Design","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012107","descriptor_name":"Research Design","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":false},{"descriptor_ui":"D012984","descriptor_name":"Software","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":false},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D015203","descriptor_name":"Reproducibility of Results","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D015203","descriptor_name":"Reproducibility of Results","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D015203","descriptor_name":"Reproducibility of Results","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D015203","descriptor_name":"Reproducibility of Results","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D059014","descriptor_name":"High-Throughput Nucleotide Sequencing","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D059014","descriptor_name":"High-Throughput Nucleotide Sequencing","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D059014","descriptor_name":"High-Throughput Nucleotide Sequencing","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D059014","descriptor_name":"High-Throughput Nucleotide Sequencing","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false}],"locations_count":5,"locations":[{"id":"doi:10.1186/s12859-018-2227-x","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s12859-018-2227-x","pdf_url":"https://bmcbioinformatics.biomedcentral.com/track/pdf/10.1186/s12859-018-2227-x","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:29940847","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/29940847","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:918e3c276a2d4799b3462f8dc2496ba0","is_oa":true,"landing_page_url":"https://doaj.org/article/918e3c276a2d4799b3462f8dc2496ba0","pdf_url":null,"source":{"id":"https://openalex.org/S112646816","display_name":"SHILAP Revista de lepidopterolog\u00eda","issn_l":"0300-5267","issn":["0300-5267","2340-4078"],"is_oa":true,"is_in_doaj":true,"is_core":false,"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"host_organization_lineage_names":[],"type":"journal"},"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 19, Iss 1, Pp 1-9 (2018)","raw_type":"article"},{"id":"pmh:oai:europepmc.org:4985558","is_oa":true,"landing_page_url":"http://europepmc.org/pmc/articles/PMC6020218","pdf_url":null,"source":{"id":"https://openalex.org/S4306400806","display_name":"Europe PMC (PubMed Central)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1303153112","host_organization_name":"European Bioinformatics Institute","host_organization_lineage":["https://openalex.org/I1303153112"],"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":"Text"},{"id":"pmh:oai:pubmedcentral.nih.gov:6020218","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/6020218","pdf_url":null,"source":{"id":"https://openalex.org/S2764455111","display_name":"PubMed Central","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":"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/s12859-018-2227-x","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s12859-018-2227-x","pdf_url":"https://bmcbioinformatics.biomedcentral.com/track/pdf/10.1186/s12859-018-2227-x","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":[{"display_name":"Industry, innovation and infrastructure","id":"https://metadata.un.org/sdg/9","score":0.4099999964237213}],"awards":[{"id":"https://openalex.org/G193519638","display_name":null,"funder_award_id":"MEYS CR","funder_id":"https://openalex.org/F4320323870","funder_display_name":"Central European Institute of Technology"},{"id":"https://openalex.org/G359464436","display_name":null,"funder_award_id":"MEYS CR","funder_id":"https://openalex.org/F4320321005","funder_display_name":"Ministerstvo \u0160kolstv\u00ed, Ml\u00e1de\u017ee a T\u011blov\u00fdchovy"},{"id":"https://openalex.org/G6380818595","display_name":null,"funder_award_id":"LM2015091","funder_id":"https://openalex.org/F4320323870","funder_display_name":"Central European Institute of Technology"},{"id":"https://openalex.org/G651177267","display_name":null,"funder_award_id":"No 692298","funder_id":"https://openalex.org/F4320335254","funder_display_name":"Horizon 2020"},{"id":"https://openalex.org/G6737480681","display_name":null,"funder_award_id":"LM2015091","funder_id":"https://openalex.org/F4320321005","funder_display_name":"Ministerstvo \u0160kolstv\u00ed, Ml\u00e1de\u017ee a T\u011blov\u00fdchovy"}],"funders":[{"id":"https://openalex.org/F4320321005","display_name":"Ministerstvo \u0160kolstv\u00ed, Ml\u00e1de\u017ee a T\u011blov\u00fdchovy","ror":"https://ror.org/037n8p820"},{"id":"https://openalex.org/F4320323870","display_name":"Central European Institute of Technology","ror":"https://ror.org/01p7k1986"},{"id":"https://openalex.org/F4320335254","display_name":"Horizon 2020","ror":null}],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2811381316.pdf","grobid_xml":"https://content.openalex.org/works/W2811381316.grobid-xml"},"referenced_works_count":25,"referenced_works":["https://openalex.org/W1919257374","https://openalex.org/W1971025765","https://openalex.org/W1980488928","https://openalex.org/W2068745538","https://openalex.org/W2076359272","https://openalex.org/W2091546524","https://openalex.org/W2103441770","https://openalex.org/W2131039280","https://openalex.org/W2147733682","https://openalex.org/W2155306111","https://openalex.org/W2155943701","https://openalex.org/W2161815151","https://openalex.org/W2168133698","https://openalex.org/W2168440186","https://openalex.org/W2173033037","https://openalex.org/W2189510244","https://openalex.org/W2190569576","https://openalex.org/W2289130930","https://openalex.org/W2323851578","https://openalex.org/W2346143774","https://openalex.org/W2518559449","https://openalex.org/W2590415818","https://openalex.org/W2739409493","https://openalex.org/W2952870794","https://openalex.org/W3098304617"],"related_works":["https://openalex.org/W2368758844","https://openalex.org/W2363453466","https://openalex.org/W2365820320","https://openalex.org/W2371823538","https://openalex.org/W2375648344","https://openalex.org/W4234121245","https://openalex.org/W2392873308","https://openalex.org/W2392163594","https://openalex.org/W4386513009","https://openalex.org/W2624709009"],"abstract_inverted_index":{"ToTem":[0],"is":[1,9],"a":[2,13],"tool":[3],"for":[4],"automated":[5],"pipeline":[6],"optimization":[7],"which":[8],"freely":[10],"available":[11],"as":[12],"web":[14],"application":[15],"at":[16],"https://totem.software":[17],".":[18]},"counts_by_year":[{"year":2024,"cited_by_count":1},{"year":2020,"cited_by_count":1}],"updated_date":"2026-04-10T15:06:20.359241","created_date":"2025-10-10T00:00:00"}
