Method
Bis-SNP: Combined DNA methylation and SNP calling for Bisulfite-seq data
1 USC Epigenome Center, University of Southern California, 1450 Biggy Street, Los Angeles, CA 90089, USA
2 Genetics, Molecular and Cellular Biology Program, University of Southern California, 1975 Zonal Avenue KAM-B16, Los Angeles, CA 90089, USA
3 Department of Preventive Medicine, Keck School of Medicine, University of Southern California, 1441 Eastlake Avenue, Los Angeles, CA 90089, USA
Genome Biology 2012, 13:R61 doi:10.1186/gb-2012-13-7-r61
Published: 11 July 2012Additional files
Additional file 1:
Detecting heterozygous C/T single nucleotide polymorphisms from Bisulfite-seq data. Hypothetical bisulfite-seq data with all labels as in Figure 1. This illustrates detection of a C/T heterozygous position (left), and that the G-strand alleles can be used to associate methylation state of an adjacent cytosine on the opposite strand with two parental alleles.
Format: PDF Size: 52KB Download file
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Additional file 2:
Bis-SNP error frequencies at C:T heterozygous SNPs. The data for heterozygous SNP calling in Figure 3c is broken up into C:T SNPs vs. other heterozygous SNPs.
Format: PDF Size: 156KB Download file
This file can be viewed with: Adobe Acrobat Reader
Additional file 3:
Bis-SNP executable, utility scripts, and User Manual. We suggest that the user download the most recent version of these files directly from [37].
Format: GZ Size: 16.6MB Download file
Additional file 4:
Bis-SNP source code. We suggest that the user download the most recent version of these files directly from [37].
Format: GZ Size: 114KB Download file
