Pyicos: a versatile toolkit for the analysis of high-throughput sequencing data.

ABSTRACT:

Motivation

High-throughput sequencing (HTS) has revolutionized gene regulation studies and is now fundamental for the detection of protein-DNA and protein-RNA binding, as well as for measuring RNA expression. With increasing variety and sequencing depth of HTS datasets, the need for more flexible and memory-efficient tools to analyse them is growing.

Results

We describe Pyicos, a powerful toolkit for the analysis of mapped reads from diverse HTS experiments: ChIP-Seq, either punctuated or broad signals, CLIP-Seq and RNA-Seq. We prove the effectiveness of Pyicos to select for significant signals and show that its accuracy is comparable and sometimes superior to that of methods specifically designed for each particular type of experiment. Pyicos facilitates the analysis of a v

SUBMITTER: Althammer S 

PROVIDER: S-EPMC3232367 | biostudies-literature | 2011 Dec

REPOSITORIES: biostudies-literature