{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,7,25]],"date-time":"2026-07-25T13:20:25Z","timestamp":1784985625940,"version":"3.55.0"},"reference-count":18,"publisher":"Oxford University Press (OUP)","issue":"22","license":[{"start":{"date-parts":[[2019,6,7]],"date-time":"2019-06-07T00:00:00Z","timestamp":1559865600000},"content-version":"vor","delay-in-days":0,"URL":"https:\/\/academic.oup.com\/journals\/pages\/open_access\/funder_policies\/chorus\/standard_publication_model"}],"funder":[{"name":"the European Union\u2019s Horizon 2020","award":["825821"],"award-info":[{"award-number":["825821"]}]},{"DOI":"10.13039\/100012579","name":"ISF","doi-asserted-by":"publisher","award":["832\/16"],"award-info":[{"award-number":["832\/16"]}],"id":[{"id":"10.13039\/100012579","id-type":"DOI","asserted-by":"publisher"}]}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2019,11,1]]},"abstract":"<jats:title>Abstract<\/jats:title>\n               <jats:sec>\n                  <jats:title>Summary<\/jats:title>\n                  <jats:p>Antibody haplotype inference (chromosomal phasing) may have clinical implications for the identification of genetic predispositions to diseases. Yet, our knowledge of the genomic loci encoding for the variable regions of the antibody is only partial, mostly due to the challenge of aligning short reads from genome sequencing to these highly repetitive loci. A powerful approach to infer the content of these loci relies on analyzing repertoires of rearranged V(D)J sequences. We present here RAbHIT, an R Haplotype Antibody Inference Tool, that implements a novel algorithm to infer V(D)J haplotypes by adapting a Bayesian framework. RAbHIT offers inference of haplotype and gene deletions. It may be applied to sequences from na\u00efve and non-na\u00efve B-cells, sequenced by different library preparation protocols.<\/jats:p>\n               <\/jats:sec>\n               <jats:sec>\n                  <jats:title>Availability and implementation<\/jats:title>\n                  <jats:p>RAbHIT is freely available for academic use from comprehensive R archive network (CRAN) (https:\/\/cran.r-project.org\/web\/packages\/rabhit\/) under CC BY-SA 4.0 license.<\/jats:p>\n               <\/jats:sec>\n               <jats:sec>\n                  <jats:title>Supplementary information<\/jats:title>\n                  <jats:p>Supplementary data are available at Bioinformatics online.<\/jats:p>\n               <\/jats:sec>","DOI":"10.1093\/bioinformatics\/btz481","type":"journal-article","created":{"date-parts":[[2019,6,4]],"date-time":"2019-06-04T19:12:29Z","timestamp":1559675549000},"page":"4840-4842","source":"Crossref","is-referenced-by-count":37,"title":["RAbHIT: R Antibody Haplotype Inference Tool"],"prefix":"10.1093","volume":"35","author":[{"given":"Ayelet","family":"Peres","sequence":"first","affiliation":[{"name":"Faculty of Engineering, Bar Ilan University , Ramat Gan 5290002, Israel"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Moriah","family":"Gidoni","sequence":"additional","affiliation":[{"name":"Faculty of Engineering, Bar Ilan University , Ramat Gan 5290002, Israel"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Pazit","family":"Polak","sequence":"additional","affiliation":[{"name":"Faculty of Engineering, Bar Ilan University , Ramat Gan 5290002, Israel"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Gur","family":"Yaari","sequence":"additional","affiliation":[{"name":"Faculty of Engineering, Bar Ilan University , Ramat Gan 5290002, Israel"}],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"286","published-online":{"date-parts":[[2019,6,7]]},"reference":[{"key":"2023013108333623600_btz481-B1","doi-asserted-by":"crossref","first-page":"1418","DOI":"10.3389\/fimmu.2017.01418","article-title":"Reproducibility and reuse of adaptive immune receptor repertoire data","volume":"8","author":"Breden","year":"2017","journal-title":"Front. 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