piPipes: a set of pipelines for piRNA and transposon analysis via small RNA-seq, RNA-seq, degradome- and CAGE-seq, ChIP-seq and genomic DNA sequencing

Author:

Han Bo W.,Wang Wei,Zamore Phillip D.,Weng Zhiping

Publisher

Oxford University Press (OUP)

Subject

Computational Mathematics,Computational Theory and Mathematics,Computer Science Applications,Molecular Biology,Biochemistry,Statistics and Probability

Reference18 articles.

1. HTSeq - A Python framework to work with high-throughput sequencing data;Bioinformatics,2014

2. Discrete small RNA-generating loci as master regulators of transposon activity in Drosophila;Cell,2007

3. BreakDancer: an algorithm for high-resolution mapping of genomic structural variation;Nat. Methods,2009

4. STAR: ultrafast universal RNA-seq aligner;Bioinformatics,2013

5. Full-length transcriptome assembly from RNA-Seq data without a reference genome;Nat. Biotechnol.,2011

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