UMI4Cats: an R package to analyze chromatin contact profiles obtained by UMI-4C.

ABSTRACT:

Motivation

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.

Results

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.

Availability and implementation

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/

SUBMITTER: Ramos-Rodriguez M 

PROVIDER: S-EPMC9502148 | biostudies-literature | 2021 Nov

REPOSITORIES: biostudies-literature