exomeCounts: Read counts from exome sequencing for CNV detection

In cn.mops: cn.mops - Mixture of Poissons for CNV detection in NGS data

Description

This data set gives the read counts on chromosome 22 (hg19) of 22 samples in 3785 exons. The rows correspond to targeted regions or exons and columns to samples. An entry is the number of reads that map to the specific segment, i.e. targeted region or exon, of the sample. The GRanges object contains the information of the genomic location. The read counts were generated from freely available exome sequencing data of the 1000Genomes Project.

Usage

exomeCounts

Format

A GRanges object of 3785 rows and 22 columns.

Source

http://www.bioinf.jku.at/software/cnmops/cnmops.html.

References

Guenter Klambauer, Karin Schwarzbauer, Andreas Mayr, Djork-Arne Clevert, Andreas Mitterecker, Ulrich Bodenhofer, Sepp Hochreiter. cn.MOPS: mixture of Poissons for discovering copy number variations in next generation sequencing data with a low false discovery rate. Nucleic Acids Research 2012 40(9); doi:10.1093/nar/gks003.

The 1000 Genomes Project Consortium. A map of human genome variation from population-scale sequencing. Nature 2010 467(1061-1073); doi:10.1038/nature09534.

cn.mops documentation built on Nov. 8, 2020, 5:59 p.m.