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However, aggregation of capture regions to single cells poses challenges. Bin2cell reconstructs cells from the highest resolution data (2 \u03bcm bins) by leveraging morphology image segmentation and gene expression information. It is compatible with established Python single cell and spatial transcriptomics software, and operates efficiently in a matter of minutes without requiring a GPU. We demonstrate improvements in downstream analysis when using the reconstructed cells over default 8 \u03bcm bins on mouse brain and human colorectal cancer data.<\/jats:p>\n                  <\/jats:sec>\n                  <jats:sec>\n                    <jats:title>Availability and implementation<\/jats:title>\n                    <jats:p>Bin2cell is available at https:\/\/github.com\/Teichlab\/bin2cell, along with documentation and usage examples, and can be installed from pip. Probe design functionality is available at https:\/\/github.com\/Teichlab\/gene2probe.<\/jats:p>\n                  <\/jats:sec>","DOI":"10.1093\/bioinformatics\/btae546","type":"journal-article","created":{"date-parts":[[2024,9,5]],"date-time":"2024-09-05T21:16:13Z","timestamp":1725570973000},"source":"Crossref","is-referenced-by-count":79,"title":["Bin2cell reconstructs cells from high resolution Visium HD data"],"prefix":"10.1093","volume":"40","author":[{"ORCID":"https:\/\/orcid.org\/0000-0002-2586-9576","authenticated-orcid":false,"given":"Krzysztof","family":"Pola\u0144ski","sequence":"first","affiliation":[{"name":"Cambridge Stem Cell Institute and Department of Medicine, University of Cambridge , Cambridge, CB2 0AW, United Kingdom"},{"name":"Cellular Genetics, Wellcome Sanger Institute, Wellcome Genome Campus , Hinxton, CB10 1SA, United Kingdom"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-8966-9047","authenticated-orcid":false,"given":"Raquel","family":"Bartolom\u00e9-Casado","sequence":"additional","affiliation":[{"name":"Cellular Genetics, Wellcome Sanger Institute, Wellcome Genome Campus , Hinxton, CB10 1SA, United Kingdom"},{"name":"Department of Pathology, University of Oslo and Oslo University Hospital\u2013Rikshospitalet , Oslo, 0372, Norway"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-2242-0562","authenticated-orcid":false,"given":"Ioannis","family":"Sarropoulos","sequence":"additional","affiliation":[{"name":"Cambridge Stem Cell Institute and Department of Medicine, University of Cambridge , Cambridge, CB2 0AW, United Kingdom"},{"name":"Cellular Genetics, Wellcome Sanger Institute, Wellcome Genome Campus , Hinxton, CB10 1SA, United 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