agplus: a rapid and flexible tool for aggregation plots

Kazumitsu Maehara; Yasuyuki Ohkawa

doi:10.1093/bioinformatics/btv322

agplus: a rapid and flexible tool for aggregation plots

Bioinformatics. 2015 Sep 15;31(18):3046-7. doi: 10.1093/bioinformatics/btv322. Epub 2015 May 20.

Authors

Kazumitsu Maehara¹, Yasuyuki Ohkawa¹

Affiliation

¹ Department of Advanced Medical Initiatives, JST-CREST, Faculty of Medicine, Kyushu University, Fukuoka 812-8582, Japan.

PMID: 25995229
DOI: 10.1093/bioinformatics/btv322

Abstract

Aggregation plots are frequently used to evaluate signal distributions at user-interested points in ChIP-Seq data analysis. agplus, a new and simple command-line tool, enables rapid and flexible generation of text tables tailored for aggregation plots from which users can easily design multiple groups based on user-definitions such as regulatory regions or transcription initiation sites.

Availability and implementation: This software is implemented in Ruby, supported on Linux and Mac OSX, and freely available at http://github.com/kazumits/agplus

Contact: yohkawa@epigenetics.med.kyushu-u.ac.jp.

Publication types

Research Support, Non-U.S. Gov't

MeSH terms

Binding Sites
Chromatin Immunoprecipitation / methods*
High-Throughput Nucleotide Sequencing / methods*
Humans
Regulatory Sequences, Nucleic Acid / genetics*
Software*
Transcription Factors / metabolism*
User-Computer Interface

Substances

Transcription Factors