{"id":"https://openalex.org/W4417362432","doi":"https://doi.org/10.1093/bioinformatics/btaf663","title":"<i>Alignoth</i> : portable and interactive visualization of read alignments","display_name":"<i>Alignoth</i> : portable and interactive visualization of read alignments","publication_year":2025,"publication_date":"2025-12-12","ids":{"openalex":"https://openalex.org/W4417362432","doi":"https://doi.org/10.1093/bioinformatics/btaf663","pmid":"https://pubmed.ncbi.nlm.nih.gov/41392197"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/btaf663","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btaf663","pdf_url":null,"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://doi.org/10.1093/bioinformatics/btaf663","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5111920811","display_name":"Felix Wiegand","orcid":null},"institutions":[{"id":"https://openalex.org/I4210119759","display_name":"Essen University Hospital","ror":"https://ror.org/02na8dn90","country_code":"DE","type":"funder","lineage":["https://openalex.org/I4210119759"]},{"id":"https://openalex.org/I62318514","display_name":"University of Duisburg-Essen","ror":"https://ror.org/04mz5ra38","country_code":"DE","type":"education","lineage":["https://openalex.org/I62318514"]}],"countries":["DE"],"is_corresponding":true,"raw_author_name":"Felix Wiegand","raw_affiliation_strings":["Bioinformatics and Computational Oncology, Institute for AI in Medicine (IKIM), University Hospital Essen, University of Duisburg-Essen , Essen 45131,","University Hospital Essen, University of Duisburg-Essen Bioinformatics and Computational Oncology, Institute for AI in Medicine (IKIM), , Essen, 45131,"],"affiliations":[{"raw_affiliation_string":"Bioinformatics and Computational Oncology, Institute for AI in Medicine (IKIM), University Hospital Essen, University of Duisburg-Essen , Essen 45131,","institution_ids":["https://openalex.org/I62318514","https://openalex.org/I4210119759"]},{"raw_affiliation_string":"University Hospital Essen, University of Duisburg-Essen Bioinformatics and Computational Oncology, Institute for AI in Medicine (IKIM), , Essen, 45131,","institution_ids":["https://openalex.org/I62318514","https://openalex.org/I4210119759"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5046976706","display_name":"Felix M\u00f6lder","orcid":"https://orcid.org/0000-0002-3976-9701"},"institutions":[{"id":"https://openalex.org/I4210119759","display_name":"Essen University Hospital","ror":"https://ror.org/02na8dn90","country_code":"DE","type":"funder","lineage":["https://openalex.org/I4210119759"]},{"id":"https://openalex.org/I62318514","display_name":"University of Duisburg-Essen","ror":"https://ror.org/04mz5ra38","country_code":"DE","type":"education","lineage":["https://openalex.org/I62318514"]}],"countries":["DE"],"is_corresponding":false,"raw_author_name":"Felix M\u00f6lder","raw_affiliation_strings":["Bioinformatics and Computational Oncology, Institute for AI in Medicine (IKIM), University Hospital Essen, University of Duisburg-Essen , Essen 45131,","Institute of Pathology, University Hospital Essen, University of Duisburg-Essen , Essen 45147,","University Hospital Essen, University of Duisburg-Essen Bioinformatics and Computational Oncology, Institute for AI in Medicine (IKIM), , Essen, 45131,"],"affiliations":[{"raw_affiliation_string":"Bioinformatics and Computational Oncology, Institute for AI in Medicine (IKIM), University Hospital Essen, University of Duisburg-Essen , Essen 45131,","institution_ids":["https://openalex.org/I62318514","https://openalex.org/I4210119759"]},{"raw_affiliation_string":"Institute of Pathology, University Hospital Essen, University of Duisburg-Essen , Essen 45147,","institution_ids":["https://openalex.org/I62318514","https://openalex.org/I4210119759"]},{"raw_affiliation_string":"University Hospital Essen, University of Duisburg-Essen Bioinformatics and Computational Oncology, Institute for AI in Medicine (IKIM), , Essen, 45131,","institution_ids":["https://openalex.org/I62318514","https://openalex.org/I4210119759"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5005124395","display_name":"Johannes K\u00f6ster","orcid":"https://orcid.org/0000-0001-9818-9320"},"institutions":[{"id":"https://openalex.org/I4210119759","display_name":"Essen University Hospital","ror":"https://ror.org/02na8dn90","country_code":"DE","type":"funder","lineage":["https://openalex.org/I4210119759"]},{"id":"https://openalex.org/I62318514","display_name":"University of Duisburg-Essen","ror":"https://ror.org/04mz5ra38","country_code":"DE","type":"education","lineage":["https://openalex.org/I62318514"]}],"countries":["DE"],"is_corresponding":false,"raw_author_name":"Johannes K\u00f6ster","raw_affiliation_strings":["Bioinformatics and Computational Oncology, Institute for AI in Medicine (IKIM), University Hospital Essen, University of Duisburg-Essen , Essen 45131,","University Hospital Essen, University of Duisburg-Essen Bioinformatics and Computational Oncology, Institute for AI in Medicine (IKIM), , Essen, 45131,"],"affiliations":[{"raw_affiliation_string":"Bioinformatics and Computational Oncology, Institute for AI in Medicine (IKIM), University Hospital Essen, University of Duisburg-Essen , Essen 45131,","institution_ids":["https://openalex.org/I62318514","https://openalex.org/I4210119759"]},{"raw_affiliation_string":"University Hospital Essen, University of Duisburg-Essen Bioinformatics and Computational Oncology, Institute for AI in Medicine (IKIM), , Essen, 45131,","institution_ids":["https://openalex.org/I62318514","https://openalex.org/I4210119759"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":3,"corresponding_author_ids":["https://openalex.org/A5111920811"],"corresponding_institution_ids":["https://openalex.org/I4210119759","https://openalex.org/I62318514"],"apc_list":{"value":3618,"currency":"USD","value_usd":3618},"apc_paid":{"value":3618,"currency":"USD","value_usd":3618},"fwci":0.0,"has_fulltext":false,"cited_by_count":0,"citation_normalized_percentile":{"value":0.42692872,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":null,"biblio":{"volume":"42","issue":"1","first_page":null,"last_page":null},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10799","display_name":"Data Visualization and Analytics","score":0.3086000084877014,"subfield":{"id":"https://openalex.org/subfields/1707","display_name":"Computer Vision and Pattern Recognition"},"field":{"id":"https://openalex.org/fields/17","display_name":"Computer Science"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}},"topics":[{"id":"https://openalex.org/T10799","display_name":"Data Visualization and Analytics","score":0.3086000084877014,"subfield":{"id":"https://openalex.org/subfields/1707","display_name":"Computer Vision and Pattern Recognition"},"field":{"id":"https://openalex.org/fields/17","display_name":"Computer Science"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}},{"id":"https://openalex.org/T11986","display_name":"Scientific Computing and Data Management","score":0.057500001043081284,"subfield":{"id":"https://openalex.org/subfields/1802","display_name":"Information Systems and Management"},"field":{"id":"https://openalex.org/fields/18","display_name":"Decision Sciences"},"domain":{"id":"https://openalex.org/domains/2","display_name":"Social Sciences"}},{"id":"https://openalex.org/T11710","display_name":"Biomedical Text Mining and Ontologies","score":0.04639999940991402,"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/visualization","display_name":"Visualization","score":0.6891000270843506},{"id":"https://openalex.org/keywords/interactive-visualization","display_name":"Interactive visualization","score":0.6110000014305115},{"id":"https://openalex.org/keywords/license","display_name":"License","score":0.5710999965667725},{"id":"https://openalex.org/keywords/software","display_name":"Software","score":0.5152999758720398},{"id":"https://openalex.org/keywords/mit-license","display_name":"MIT License","score":0.45739999413490295},{"id":"https://openalex.org/keywords/data-visualization","display_name":"Data visualization","score":0.3287000060081482}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.8072999715805054},{"id":"https://openalex.org/C36464697","wikidata":"https://www.wikidata.org/wiki/Q451553","display_name":"Visualization","level":2,"score":0.6891000270843506},{"id":"https://openalex.org/C64073096","wikidata":"https://www.wikidata.org/wiki/Q451553","display_name":"Interactive visualization","level":3,"score":0.6110000014305115},{"id":"https://openalex.org/C121684516","wikidata":"https://www.wikidata.org/wiki/Q7600677","display_name":"Computer graphics (images)","level":1,"score":0.6010000109672546},{"id":"https://openalex.org/C2780560020","wikidata":"https://www.wikidata.org/wiki/Q79719","display_name":"License","level":2,"score":0.5710999965667725},{"id":"https://openalex.org/C2777904410","wikidata":"https://www.wikidata.org/wiki/Q7397","display_name":"Software","level":2,"score":0.5152999758720398},{"id":"https://openalex.org/C174183944","wikidata":"https://www.wikidata.org/wiki/Q334661","display_name":"MIT License","level":3,"score":0.45739999413490295},{"id":"https://openalex.org/C172367668","wikidata":"https://www.wikidata.org/wiki/Q6504956","display_name":"Data visualization","level":3,"score":0.3287000060081482},{"id":"https://openalex.org/C40866790","wikidata":"https://www.wikidata.org/wiki/Q956238","display_name":"Interactive computing","level":2,"score":0.32839998602867126},{"id":"https://openalex.org/C197781089","wikidata":"https://www.wikidata.org/wiki/Q575650","display_name":"Rust (programming language)","level":2,"score":0.288100004196167},{"id":"https://openalex.org/C37789001","wikidata":"https://www.wikidata.org/wiki/Q782543","display_name":"Graphical user interface","level":2,"score":0.27880001068115234},{"id":"https://openalex.org/C86297840","wikidata":"https://www.wikidata.org/wiki/Q6045397","display_name":"Interactive design","level":2,"score":0.27549999952316284},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.26809999346733093}],"mesh":[{"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":"D016415","descriptor_name":"Sequence Alignment","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D016415","descriptor_name":"Sequence Alignment","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D016415","descriptor_name":"Sequence Alignment","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D016415","descriptor_name":"Sequence Alignment","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D017422","descriptor_name":"Sequence Analysis, DNA","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D017422","descriptor_name":"Sequence Analysis, DNA","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D017422","descriptor_name":"Sequence Analysis, DNA","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D017422","descriptor_name":"Sequence Analysis, DNA","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true}],"locations_count":3,"locations":[{"id":"doi:10.1093/bioinformatics/btaf663","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btaf663","pdf_url":null,"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:41392197","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/41392197","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:12777968","is_oa":true,"landing_page_url":"https://pmc.ncbi.nlm.nih.gov/articles/PMC12777968/","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":"Bioinformatics","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1093/bioinformatics/btaf663","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btaf663","pdf_url":null,"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":[],"funders":[],"has_content":{"pdf":false,"grobid_xml":false},"content_urls":null,"referenced_works_count":13,"referenced_works":["https://openalex.org/W1551643567","https://openalex.org/W2015475193","https://openalex.org/W2108234281","https://openalex.org/W2117131162","https://openalex.org/W2151328554","https://openalex.org/W2516678343","https://openalex.org/W2605897695","https://openalex.org/W2765745983","https://openalex.org/W3122109253","https://openalex.org/W4213226292","https://openalex.org/W4311573638","https://openalex.org/W4312114021","https://openalex.org/W4412560543"],"related_works":[],"abstract_inverted_index":{"Alignoth":[0],"is":[1,13],"freely":[2],"available":[3],"under":[4],"the":[5],"MIT":[6],"license":[7],"at":[8],"https://github.com/alignoth/alignoth":[9],"(doi:":[10],"https://doi.org/10.5281/zenodo.15837719).":[11],"It":[12],"implemented":[14],"in":[15],"Rust":[16],"and":[17],"can":[18],"be":[19],"installed":[20],"via":[21],"Cargo":[22],"or":[23],"Conda.":[24]},"counts_by_year":[],"updated_date":"2026-03-20T23:20:44.827607","created_date":"2025-12-16T00:00:00"}
