snakePipes: facilitating flexible, scalable and integrative epigenomic analysis

被引：116

作者：

Bhardwaj, Vivek ^{[1
,2
]}

Heyne, Steffen ^{[1
]}

Sikora, Katarzyna ^{[1
]}

Rabbani, Leily ^{[1
]}

Rauer, Michael ^{[1
]}

Kilpert, Fabian ^{[3
,4
]}

Richter, Andreas S. ^{[5
]}

Ryan, Devon P. ^{[1
]}

Manke, Thomas ^{[1
]}

机构：

[1] Max Planck Inst Immunobiol & Epigenet, D-79108 Freiburg, Germany

[2] Univ Freiburg, Fac Biol, D-79104 Freiburg, Germany

[3] Univ Lubeck, Inst Neurogenet, D-23562 Lubeck, Germany

[4] Univ Lubeck, Inst Cardiogenet, D-23562 Lubeck, Germany

[5] Genedata AG, CH-4053 Basel, Switzerland

来源：

BIOINFORMATICS | 2019年 / 35卷 / 22期

关键词：

D O I：

10.1093/bioinformatics/btz436

中图分类号：

Q5 [生物化学];

学科分类号：

070307 [化学生物学];

摘要：

The Summary: Due to the rapidly increasing scale and diversity of epigenomic data, modular and scalable analysis workflows are of wide interest. Here we present snakePipes, a workflow package for processing and downstream analysis of data from common epigenomic assays: ChIP-seq, RNA-seq, Bisulfite-seq, ATAC-seq, Hi-C and single-cell RNA-seq. snakePipes enables users to assemble variants of each workflow and to easily install and upgrade the underlying tools, via its simple command-line wrappers and yaml files.

引用

页码：4757 / 4759

页数：3

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