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This article is part of a special issue on epigenomics.

Open Access Highly Accessed Software

CHANCE: comprehensive software for quality control and validation of ChIP-seq data

Aaron Diaz12, Abhinav Nellore12 and Jun S Song1234*

Author Affiliations

1 Institute for Human Genetics, UCSF, 513 Parnassus Avenue, Box 0794, San Francisco, CA 94143-0794, USA

2 The Eli and Edythe Broad Center of Regeneration Medicine and Stem Cell Research, UCSF, 35 Medical Center Way, San Francisco, CA 94143-0525, USA

3 Department of Epidemiology and Biostatistics, UCSF, 185 Berry Street, Lobby 5, Suite 5700, San Francisco, CA 94107, USA

4 Department of Bioengineering and Therapeutic Sciences, UCSF, 513 Parnassus Avenue, San Francisco, CA 94143-0912, USA

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Genome Biology 2012, 13:R98  doi:10.1186/gb-2012-13-10-r98

Published: 15 October 2012

Additional files

Additional file 1:

CHANCE feature comparison table.

Format: PDF Size: 66KB Download file

This file can be viewed with: Adobe Acrobat Reader

Open Data

Additional file 2:

CHANCE training data table. This file enumerates the experiment information and url for each ENCODE sample used in either the training data set for the false discovery rate computation in the "IP enrichment" module or the "Comparison with ENCODE module".

Format: XLSX Size: 152KB Download file

Open Data