biostudies-literatureRamos-Rodriguez MEFSD/JDRF/Lilly Programme on Type 1 Diabetes ResearchSpanish Ministry of Economy and Competiveness4240-4242https://www.ebi.ac.uk/biostudies/studies/S-EPMC9502148biostudies-literatureUnknown37(22)<h4>Motivation</h4>UMI-4C, a technique that combines chromosome conformation capture (4C) and unique molecular identifiers (UMI), is widely used to profile and quantitatively compare targeted chromosomal contact profiles. The analysis of UMI-4C experiments presents several computational challenges, including the removal of the PCR duplication bias and the identification of differential chromatin contacts.<h4>Results</h4>We have developed UMI4Cats (UMI-4C Analysis Turned Simple), an R package that facilitates processing, analyzing and visualizing of data obtained by UMI-4C experiments.<h4>Availability and implementation</h4>UMI4Cats is implemented as an R package supported on Linux, MacOS and MS Windows. UMI4Cats is available from Bioconductor (https://www.bioconductor.org/packages/release/bioc/html/UMI4Cats.html) and GitHub (https://github.com/Pasquali-lab/UMI4Cats).<h4>Supplementary information</h4>Supplementary data are available at Bioinformatics online.Bioinformatics (Oxford, England)UMI4Cats: an R package to analyze chromatin contact profiles obtained by UMI-4C.PMC9502148CEX2018-000792-MSAF2017-86242-RRamos-Rodriguez MPasquali LSubirana-Granes MfalseUMI4Cats: an R package to analyze chromatin contact profiles obtained by UMI-4C.<h4>Motivation</h4>UMI-4C, a technique that combines chromosome conformation capture (4C) and unique molecular identifiers (UMI), is widely used to profile and quantitatively compare targeted chromosomal contact profiles. The analysis of UMI-4C experiments presents several computational challenges, including the removal of the PCR duplication bias and the identification of differential chromatin contacts.<h4>Results</h4>We have developed UMI4Cats (UMI-4C Analysis Turned Simple), an R package that facilitates processing, analyzing and visualizing of data obtained by UMI-4C experiments.<h4>Availability and implementation</h4>UMI4Cats is implemented as an R package supported on Linux, MacOS and MS Windows. UMI4Cats is available from Bioconductor (https://www.bioconductor.org/packages/release/bioc/html/UMI4Cats.html) and GitHub (https://github.com/Pasquali-lab/UMI4Cats).<h4>Supplementary information</h4>Supplementary data are available at Bioinformatics online.2021-01-01T00:00:00Z2021 Nov2025-04-19T03:33:44.959Z2025-04-07T13:42:26.725ZS-EPMC95021483400930210.1093/bioinformatics/btab392