Abstract
AbstractSummaryHere, we introduceracoon_clip, a sustainable and fully automated pipeline for the complete processing of iCLIP and eCLIP data to extract RNA binding signal at single-nucleotide resolution.racoon_clipis easy to install and execute, with multiple pre-settings and fully customizable parameters, and outputs a conclusive summary report with visualizations and statistics for all analysis steps.Availability and Implementationracoon_clipis implemented as a snakemake-powered command line tool (snakemake version ≥ 7.22, Python version ≥ 3.9). The latest release can be downloaded from GitHub (https://github.com/ZarnackGroup/racoon_clip/tree/main) and installed via pip. A detailed documentation, including installation, usage and customization, can be found athttps://racoon-clip.readthedocs.io/en/latest/.The example datasets can be downloaded from the Short Read Archive (SRA; iCLIP: SRR5646576, SRR5646577, SRR5646578) or the ENCODE Project (eCLIP: ENCSR202BFN).ContactKathi Zarnack,kathi.zarnack@bmls.deIssue SectionGenome analysis
Publisher
Cold Spring Harbor Laboratory
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