{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,7,7]],"date-time":"2026-07-07T12:15:44Z","timestamp":1783426544524,"version":"3.54.6"},"reference-count":8,"publisher":"Oxford University Press (OUP)","issue":"5","license":[{"start":{"date-parts":[[2020,8,17]],"date-time":"2020-08-17T00:00:00Z","timestamp":1597622400000},"content-version":"vor","delay-in-days":0,"URL":"https:\/\/academic.oup.com\/journals\/pages\/open_access\/funder_policies\/chorus\/standard_publication_model"}],"funder":[{"DOI":"10.13039\/100000002","name":"National Institutes of Health","doi-asserted-by":"publisher","award":["R01HG010149"],"award-info":[{"award-number":["R01HG010149"]}],"id":[{"id":"10.13039\/100000002","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/100000002","name":"National Institutes of Health","doi-asserted-by":"publisher","award":["DP5OD024577"],"award-info":[{"award-number":["DP5OD024577"]}],"id":[{"id":"10.13039\/100000002","id-type":"DOI","asserted-by":"publisher"}]}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2021,5,5]]},"abstract":"<jats:title>Abstract<\/jats:title>\n                  <jats:sec>\n                    <jats:title>Summary<\/jats:title>\n                    <jats:p>A rich set of tools have recently been developed for performing genome-wide genotyping of tandem repeats (TRs). However, standardized tools for downstream analysis of these results are lacking. To facilitate TR analysis applications, we present TRTools, a Python library and suite of command line tools for filtering, merging and quality control of TR genotype files. TRTools utilizes an internal harmonization module, making it compatible with outputs from a wide range of TR genotypers.<\/jats:p>\n                  <\/jats:sec>\n                  <jats:sec>\n                    <jats:title>Availability and implementation<\/jats:title>\n                    <jats:p>TRTools is freely available at https:\/\/github.com\/gymreklab\/TRTools. Detailed documentation is available at https:\/\/trtools.readthedocs.io.<\/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\/btaa736","type":"journal-article","created":{"date-parts":[[2020,8,12]],"date-time":"2020-08-12T15:32:50Z","timestamp":1597246370000},"page":"731-733","source":"Crossref","is-referenced-by-count":62,"title":["TRTools: a toolkit for genome-wide analysis of tandem repeats"],"prefix":"10.1093","volume":"37","author":[{"given":"Nima","family":"Mousavi","sequence":"first","affiliation":[{"name":"Department of Electrical and Computer Engineering, University of California San Diego , La Jolla, 92093, USA"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Jonathan","family":"Margoliash","sequence":"additional","affiliation":[{"name":"Department of Medicine, University of California San Diego , La Jolla, 92093, USA"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Neha","family":"Pusarla","sequence":"additional","affiliation":[{"name":"Department of Bioengineering, University of California San Diego , La Jolla, 92093, USA"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Shubham","family":"Saini","sequence":"additional","affiliation":[{"name":"Department of Computer Science and Engineering, University of California San Diego , La Jolla, 92093, USA"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Richard","family":"Yanicky","sequence":"additional","affiliation":[{"name":"Department of Medicine, University of California San Diego , La Jolla, 92093, USA"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-6086-3903","authenticated-orcid":false,"given":"Melissa","family":"Gymrek","sequence":"additional","affiliation":[{"name":"Department of Medicine, University of California San Diego , La Jolla, 92093, USA"},{"name":"Department of Computer Science and Engineering, University of California San Diego , La Jolla, 92093, USA"}],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"286","published-online":{"date-parts":[[2020,8,17]]},"reference":[{"key":"2023051704110125500_btaa736-B1","doi-asserted-by":"crossref","first-page":"1709","DOI":"10.1101\/gr.235119.118","article-title":"Targeted genotyping of variable number tandem repeats with adVNTR","volume":"28","author":"Bakhtiari","year":"2018","journal-title":"Genome Res"},{"key":"2023051704110125500_btaa736-B2","author":"Casbon","year":"2012"},{"key":"2023051704110125500_btaa736-B3","doi-asserted-by":"crossref","first-page":"1895","DOI":"10.1101\/gr.225672.117","article-title":"Detection of long repeat expansions from PCR-free whole-genome sequence data","volume":"27","author":"Dolzhenko","year":"2017","journal-title":"Genome Res"},{"key":"2023051704110125500_btaa736-B4","doi-asserted-by":"crossref","first-page":"286","DOI":"10.1038\/nrg.2017.115","article-title":"Tandem repeats mediating genetic plasticity in health and disease","volume":"19","author":"Hannan","year":"2018","journal-title":"Nat. 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