{"id":"https://openalex.org/W6949182259","doi":"https://doi.org/10.5281/zenodo.14414693","title":"TIAToolbox as an end-to-end library for advanced tissue image analytics","display_name":"TIAToolbox as an end-to-end library for advanced tissue image analytics","publication_year":2024,"publication_date":"2024-12-12","ids":{"openalex":"https://openalex.org/W6949182259","doi":"https://doi.org/10.5281/zenodo.14414693"},"language":"en","primary_location":{"id":"doi:10.5281/zenodo.14414693","is_oa":true,"landing_page_url":"https://doi.org/10.5281/zenodo.14414693","pdf_url":null,"source":{"id":"https://openalex.org/S4306400562","display_name":"Zenodo (CERN European Organization for Nuclear Research)","issn_l":null,"issn":null,"is_oa":true,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I67311998","host_organization_name":"European Organization for Nuclear Research","host_organization_lineage":["https://openalex.org/I67311998"],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":null,"is_accepted":false,"is_published":false,"raw_source_name":null,"raw_type":"article"},"type":"other","indexed_in":["datacite"],"open_access":{"is_oa":true,"oa_status":"green","oa_url":"https://doi.org/10.5281/zenodo.14414693","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":null,"display_name":"Pocock, Johnathan","orcid":"https://orcid.org/0000-0002-2866-981X"},"institutions":[],"countries":[],"is_corresponding":true,"raw_author_name":"Pocock, Johnathan","raw_affiliation_strings":[],"affiliations":[]},{"author_position":"middle","author":{"id":null,"display_name":"Graham, Simon","orcid":"https://orcid.org/0000-0002-2214-8212"},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Graham, Simon","raw_affiliation_strings":[],"affiliations":[]},{"author_position":"middle","author":{"id":null,"display_name":"Vu, Quoc Dang","orcid":"https://orcid.org/0000-0003-2075-9201"},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Vu, Quoc Dang","raw_affiliation_strings":[],"affiliations":[]},{"author_position":"middle","author":{"id":null,"display_name":"Jahanifar, Mostafa","orcid":"https://orcid.org/0000-0001-5842-0460"},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Jahanifar, Mostafa","raw_affiliation_strings":[],"affiliations":[]},{"author_position":"middle","author":{"id":null,"display_name":"Deshpande, Srijay","orcid":"https://orcid.org/0000-0003-3923-2944"},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Deshpande, Srijay","raw_affiliation_strings":[],"affiliations":[]},{"author_position":"middle","author":{"id":null,"display_name":"Hadjigeorghiou, Giorgos","orcid":"https://orcid.org/0000-0003-2734-8915"},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Hadjigeorghiou, Giorgos","raw_affiliation_strings":[],"affiliations":[]},{"author_position":"middle","author":{"id":null,"display_name":"Shephard, Adam","orcid":"https://orcid.org/0000-0003-0969-2990"},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Shephard, Adam","raw_affiliation_strings":[],"affiliations":[]},{"author_position":"middle","author":{"id":null,"display_name":"Bashir, Raja Muhammad Saad","orcid":"https://orcid.org/0000-0002-8984-6963"},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Bashir, Raja Muhammad Saad","raw_affiliation_strings":[],"affiliations":[]},{"author_position":"middle","author":{"id":null,"display_name":"Bilal, Mohsin","orcid":"https://orcid.org/0000-0001-8632-2729"},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Bilal, Mohsin","raw_affiliation_strings":[],"affiliations":[]},{"author_position":"middle","author":{"id":null,"display_name":"Lu, Wenqi","orcid":"https://orcid.org/0000-0002-7838-0918"},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Lu, Wenqi","raw_affiliation_strings":[],"affiliations":[]},{"author_position":"middle","author":{"id":null,"display_name":"Epstein, David","orcid":"https://orcid.org/0000-0001-8634-7168"},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Epstein, David","raw_affiliation_strings":[],"affiliations":[]},{"author_position":"middle","author":{"id":null,"display_name":"Minhas, Fayyaz","orcid":"https://orcid.org/0000-0001-9129-1189"},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Minhas, Fayyaz","raw_affiliation_strings":[],"affiliations":[]},{"author_position":"middle","author":{"id":null,"display_name":"Rajpoot, Nasir M.","orcid":"https://orcid.org/0000-0002-4706-1308"},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Rajpoot, Nasir M.","raw_affiliation_strings":[],"affiliations":[]},{"author_position":"last","author":{"id":null,"display_name":"Raza, Shan E Ahmed","orcid":"https://orcid.org/0000-0002-1097-1738"},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Raza, Shan E Ahmed","raw_affiliation_strings":[],"affiliations":[]}],"institutions":[],"countries_distinct_count":0,"institutions_distinct_count":14,"corresponding_author_ids":[],"corresponding_institution_ids":[],"apc_list":null,"apc_paid":null,"fwci":null,"has_fulltext":false,"cited_by_count":0,"citation_normalized_percentile":null,"cited_by_percentile_year":null,"biblio":{"volume":null,"issue":null,"first_page":null,"last_page":null},"is_retracted":false,"is_paratext":false,"is_xpac":true,"primary_topic":null,"topics":[],"keywords":[{"id":"https://openalex.org/keywords/python","display_name":"Python (programming language)","score":0.5778999924659729},{"id":"https://openalex.org/keywords/rendering","display_name":"Rendering (computer graphics)","score":0.5662999749183655},{"id":"https://openalex.org/keywords/json","display_name":"JSON","score":0.4943000078201294},{"id":"https://openalex.org/keywords/analytics","display_name":"Analytics","score":0.46459999680519104},{"id":"https://openalex.org/keywords/metadata","display_name":"Metadata","score":0.42289999127388},{"id":"https://openalex.org/keywords/backward-compatibility","display_name":"Backward compatibility","score":0.38440001010894775},{"id":"https://openalex.org/keywords/source-code","display_name":"Source code","score":0.34290000796318054},{"id":"https://openalex.org/keywords/compatibility","display_name":"Compatibility (geochemistry)","score":0.32670000195503235}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.8417999744415283},{"id":"https://openalex.org/C519991488","wikidata":"https://www.wikidata.org/wiki/Q28865","display_name":"Python (programming language)","level":2,"score":0.5778999924659729},{"id":"https://openalex.org/C205711294","wikidata":"https://www.wikidata.org/wiki/Q176953","display_name":"Rendering (computer graphics)","level":2,"score":0.5662999749183655},{"id":"https://openalex.org/C2780416260","wikidata":"https://www.wikidata.org/wiki/Q2063","display_name":"JSON","level":2,"score":0.4943000078201294},{"id":"https://openalex.org/C79158427","wikidata":"https://www.wikidata.org/wiki/Q485396","display_name":"Analytics","level":2,"score":0.46459999680519104},{"id":"https://openalex.org/C93518851","wikidata":"https://www.wikidata.org/wiki/Q180160","display_name":"Metadata","level":2,"score":0.42289999127388},{"id":"https://openalex.org/C20574231","wikidata":"https://www.wikidata.org/wiki/Q844605","display_name":"Backward compatibility","level":2,"score":0.38440001010894775},{"id":"https://openalex.org/C111919701","wikidata":"https://www.wikidata.org/wiki/Q9135","display_name":"Operating system","level":1,"score":0.35109999775886536},{"id":"https://openalex.org/C23123220","wikidata":"https://www.wikidata.org/wiki/Q816826","display_name":"Information retrieval","level":1,"score":0.3465999960899353},{"id":"https://openalex.org/C43126263","wikidata":"https://www.wikidata.org/wiki/Q128751","display_name":"Source code","level":2,"score":0.34290000796318054},{"id":"https://openalex.org/C2778648169","wikidata":"https://www.wikidata.org/wiki/Q967768","display_name":"Compatibility (geochemistry)","level":2,"score":0.32670000195503235},{"id":"https://openalex.org/C52622490","wikidata":"https://www.wikidata.org/wiki/Q1026626","display_name":"Feature extraction","level":2,"score":0.3264000117778778},{"id":"https://openalex.org/C52723943","wikidata":"https://www.wikidata.org/wiki/Q1127410","display_name":"Serialization","level":2,"score":0.3192000091075897},{"id":"https://openalex.org/C77088390","wikidata":"https://www.wikidata.org/wiki/Q8513","display_name":"Database","level":1,"score":0.3167000114917755},{"id":"https://openalex.org/C56666940","wikidata":"https://www.wikidata.org/wiki/Q788790","display_name":"Documentation","level":2,"score":0.30550000071525574},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.29750001430511475},{"id":"https://openalex.org/C196832560","wikidata":"https://www.wikidata.org/wiki/Q8815","display_name":"ASCII","level":2,"score":0.27309998869895935},{"id":"https://openalex.org/C199360897","wikidata":"https://www.wikidata.org/wiki/Q9143","display_name":"Programming language","level":1,"score":0.2703000009059906},{"id":"https://openalex.org/C79974875","wikidata":"https://www.wikidata.org/wiki/Q483639","display_name":"Cloud computing","level":2,"score":0.26969999074935913},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.2689000070095062},{"id":"https://openalex.org/C4924752","wikidata":"https://www.wikidata.org/wiki/Q184148","display_name":"Plug-in","level":2,"score":0.2687999904155731},{"id":"https://openalex.org/C162319229","wikidata":"https://www.wikidata.org/wiki/Q175263","display_name":"Data structure","level":2,"score":0.26809999346733093},{"id":"https://openalex.org/C55282118","wikidata":"https://www.wikidata.org/wiki/Q252683","display_name":"Snapshot (computer storage)","level":2,"score":0.2556999921798706},{"id":"https://openalex.org/C121684516","wikidata":"https://www.wikidata.org/wiki/Q7600677","display_name":"Computer graphics (images)","level":1,"score":0.2524999976158142}],"mesh":[],"locations_count":1,"locations":[{"id":"doi:10.5281/zenodo.14414693","is_oa":true,"landing_page_url":"https://doi.org/10.5281/zenodo.14414693","pdf_url":null,"source":{"id":"https://openalex.org/S4306400562","display_name":"Zenodo (CERN European Organization for Nuclear Research)","issn_l":null,"issn":null,"is_oa":true,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I67311998","host_organization_name":"European Organization for Nuclear Research","host_organization_lineage":["https://openalex.org/I67311998"],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":null,"is_accepted":false,"is_published":null,"raw_source_name":null,"raw_type":"article"}],"best_oa_location":{"id":"doi:10.5281/zenodo.14414693","is_oa":true,"landing_page_url":"https://doi.org/10.5281/zenodo.14414693","pdf_url":null,"source":{"id":"https://openalex.org/S4306400562","display_name":"Zenodo (CERN European Organization for Nuclear Research)","issn_l":null,"issn":null,"is_oa":true,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I67311998","host_organization_name":"European Organization for Nuclear Research","host_organization_lineage":["https://openalex.org/I67311998"],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":null,"is_accepted":false,"is_published":false,"raw_source_name":null,"raw_type":"article"},"sustainable_development_goals":[{"display_name":"Industry, innovation and infrastructure","id":"https://metadata.un.org/sdg/9","score":0.4246746599674225}],"awards":[],"funders":[],"has_content":{"grobid_xml":false,"pdf":false},"content_urls":null,"referenced_works_count":0,"referenced_works":[],"related_works":[],"abstract_inverted_index":{"TIAToolbox":[0],"v1.6.0":[1],"(2024-12-12)":[2],"Major":[3],"Updates":[4,175],"and":[5,31,117,241],"Feature":[6],"Improvements":[7,83],"Foundation":[8],"Models":[9],"Support":[10,62,74,79,149],"via":[11],"timm":[12,43],"API":[13,85],"(#856,":[14],"contributed":[15,153,170],"by":[16,154,171],"@GeorgeBatch)":[17,155],"Introduced":[18],"TimmBackbone":[19],"for":[20,68,95,167,178,187,199],"running":[21],"additional":[22],"PyTorch":[23],"Image":[24],"Models.":[25],"Tested":[26],"models":[27],"include":[28],"UNI,":[29],"Prov-GigaPath,":[30],"H-optimus-0.":[32],"Added":[33,209,234],"an":[34],"example":[35],"notebook":[36],"demonstrating":[37],"feature":[38],"extraction":[39],"with":[40,50,93,102,112,145,180,202,251],"foundation":[41],"models.":[42],"added":[44],"as":[45],"a":[46],"dependency.":[47],"Performance":[48],"Enhancements":[49],"torch.compile":[51],"(#716)":[52],"Improved":[53],"performance":[54],"on":[55],"newer":[56],"GPUs":[57],"using":[58],"torch.compile.":[59],"Multichannel":[60],"Input":[61],"in":[63,134,150,204,214,227],"WSIReader":[64,135,151,228],"(#742)":[65],"AnnotationStore":[66],"Filtering":[67],"Patch":[69],"Extraction":[70,192],"(#822)":[71],"Python":[72,77],"3.12":[73],"Deprecation":[75,246],"of":[76,143],"3.8":[78],"CLI":[80],"Response":[81],"Time":[82],"(#795)":[84],"Changes":[86,119,231],"Device":[87],"Specification":[88],"Update":[89,158,248,259,267],"(#882)":[90],"Replaced":[91,110,249],"has_gpu":[92],"device":[94],"specifying":[96],"GPU":[97],"or":[98],"CPU":[99],"usage,":[100],"aligning":[101],"PyTorch's":[103],"Model.to()":[104],"functionality.":[105],"Windows":[106],"Compatibility":[107,174],"Enhancement":[108],"(#769)":[109],"POWER":[111],"explicit":[113],"multiplication.":[114],"Bug":[115],"Fixes":[116,139,193],"Other":[118],"TIFFWSIReader":[120],"Bound":[121],"Reading":[122],"Adjustment":[123],"(#777)":[124],"Fixed":[125],"read_bound":[126],"to":[127,185,212,236,261],"use":[128],"adjusted":[129],"bounds.":[130],"Reduced":[131],"code":[132],"complexity":[133],"(#814).":[136],"Annotation":[137],"Rendering":[138],"(#813)":[140],"Corrected":[141,160],"rendering":[142],"annotations":[144],"holes.":[146],"Non-Tiled":[147],"TIFF":[148],"(#807,":[152],"HoVer-Net":[156],"Documentation":[157],"(#751)":[159],"class":[161],"output":[162],"information.":[163],"Citation":[164],"File":[165],"Fix":[166,226,273],"cffconvert":[168],"(#869,":[169],"@Alon-Alexander)":[172],"Bokeh":[173],"Updated":[176,260],"bokeh_app":[177],"compatibility":[179,189],"bokeh>=3.5.0.":[181],"Switched":[182],"from":[183],"size":[184],"radius":[186],"bokeh>3.4.0":[188],"(#796).":[190],"JSON":[191,200],"(#772)":[194],"Restructured":[195],"SQL":[196],"expression":[197],"construction":[198],"properties":[201],"dots":[203],"keys.":[205],"VahadaneExtractor":[206],"Warning":[207],"(#871)":[208],"warning":[210],"due":[211],"changes":[213],"scikit-learn>0.23.0":[215],"dictionary":[216],"learning":[217],"(#382).":[218],"PatchExtractor":[219],"Error":[220],"Message":[221],"Refinement":[222],"(#883)":[223],"Immutable":[224],"Output":[225],"(#850)":[229],"Development-Related":[230],"Mypy":[232],"Checks":[233],"Applied":[235],"utils,":[237],"tools,":[238],"data,":[239],"annotation,":[240],"cli/common.":[242],"ReadTheDocs":[243],"PDF":[244],"Build":[245],"Formatter":[247],"black":[250],"ruff-format.":[252],"Dependency":[253],"Removal":[254],"Removed":[255],"jinja2.":[256],"Test":[257],"Environment":[258,265],"Ubuntu":[262],"24.04.":[263],"Conda":[264],"Workflow":[266],"Implemented":[268],"micromamba":[269],"setup.":[270],"Codecov":[271],"Reporting":[272],"(#811)":[274],"Full":[275],"Changelog:":[276],"https://github.com/TissueImageAnalytics/tiatoolbox/compare/v1.5.1...v1.6.0":[277]},"counts_by_year":[],"updated_date":"2026-03-27T05:58:40.876381","created_date":"2025-10-10T00:00:00"}
