Affiliation:
1. State Key Laboratory of Oncology in South China, Cancer Center, Collaborative Innovation Center for Cancer Medicine, School of Life Sciences, Sun Yat-sen University , Guangzhou 510060, China
Abstract
Abstract
Summary
MeRIPseqPipe is an integrated and automatic pipeline that can provide users a friendly solution to perform in-depth mining of MeRIP-seq data. It integrates many functional analysis modules, range from basic processing to downstream analysis. All the processes are embedded in Nextflow with Docker support, which ensures high reproducibility and scalability of the analysis. MeRIPseqPipe is particularly suitable for analyzing a large number of samples at once with a simple command. The final output directory is structured based on each step and tool. And visualization reports containing various tables and plots are provided as HTML files.
Availability and implementation
MeRIPseqPipe is freely available at https://github.com/canceromics/MeRIPseqPipe.
Supplementary information
Supplementary data are available at Bioinformatics online.
Funder
National Natural Science Foundation of China
National Key R&D Program of China
Program for Guangdong Introducing Innovative and Entrepreneurial Teams
Guangdong Basic and Applied Basic Research Foundation
Publisher
Oxford University Press (OUP)
Subject
Computational Mathematics,Computational Theory and Mathematics,Computer Science Applications,Molecular Biology,Biochemistry,Statistics and Probability
Cited by
6 articles.
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