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ComBat and ComBat-Seq are among the most widely used tools for correcting those technical biases, called batch effects, in, respectively, microarray and RNA-Seq expression data.<\/jats:p>\n                  <\/jats:sec>\n                  <jats:sec>\n                    <jats:title>Results<\/jats:title>\n                    <jats:p>\n                      In this technical note, we present a new Python implementation of ComBat and ComBat-Seq. While the mathematical framework is strictly the same, we show here that our implementations: (i) have similar results in terms of batch effects correction; (ii) are as fast or faster than the original implementations in R and; (iii) offer new tools for the bioinformatics community to participate in its development. pyComBat is implemented in the Python language and is distributed under GPL-3.0 (\n                      <jats:ext-link xmlns:xlink=\"http:\/\/www.w3.org\/1999\/xlink\" ext-link-type=\"uri\" xlink:href=\"https:\/\/www.gnu.org\/licenses\/gpl-3.0.en.html\">https:\/\/www.gnu.org\/licenses\/gpl-3.0.en.html<\/jats:ext-link>\n                      ) license as a module of the inmoose package. Source code is available at\n                      <jats:ext-link xmlns:xlink=\"http:\/\/www.w3.org\/1999\/xlink\" ext-link-type=\"uri\" xlink:href=\"https:\/\/github.com\/epigenelabs\/inmoose\">https:\/\/github.com\/epigenelabs\/inmoose<\/jats:ext-link>\n                      and Python package at\n                      <jats:ext-link xmlns:xlink=\"http:\/\/www.w3.org\/1999\/xlink\" ext-link-type=\"uri\" xlink:href=\"https:\/\/pypi.org\/project\/inmoose\">https:\/\/pypi.org\/project\/inmoose<\/jats:ext-link>\n                      .\n                    <\/jats:p>\n                  <\/jats:sec>\n                  <jats:sec>\n                    <jats:title>Conclusions<\/jats:title>\n                    <jats:p>We present a new Python implementation of state-of-the-art tools ComBat and ComBat-Seq for the correction of batch effects in microarray and RNA-Seq data. This new implementation, based on the same mathematical frameworks as ComBat and ComBat-Seq, offers similar power for batch effect correction, at reduced computational cost.<\/jats:p>\n                  <\/jats:sec>","DOI":"10.1186\/s12859-023-05578-5","type":"journal-article","created":{"date-parts":[[2023,12,6]],"date-time":"2023-12-06T22:02:27Z","timestamp":1701900147000},"update-policy":"https:\/\/doi.org\/10.1007\/springer_crossmark_policy","source":"Crossref","is-referenced-by-count":127,"title":["pyComBat, a Python tool for batch effects correction in high-throughput molecular data using empirical Bayes methods"],"prefix":"10.1186","volume":"24","author":[{"given":"Abdelkader","family":"Behdenna","sequence":"first","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Maximilien","family":"Colange","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Julien","family":"Haziza","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Aryo","family":"Gema","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Guillaume","family":"App\u00e9","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Chlo\u00e9-Agathe","family":"Azencott","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Akp\u00e9li","family":"Nordor","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"297","published-online":{"date-parts":[[2023,12,7]]},"reference":[{"issue":"17","key":"5578_CR1","doi-asserted-by":"publisher","first-page":"4672","DOI":"10.1021\/ac034241b","volume":"75","author":"TL Fare","year":"2003","unstructured":"Fare TL, Coffey EM, Dai H, He YD, Kessler DA, Kilian KA, et al. 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