BAM-matcher¶
Description¶
A simple tool for determining whether two BAM files contain reads sequenced from the same sample or patient by counting genotype matches at common SNPs.
BAM-matcher is most useful at comparing whole-genome-sequencing (WGS), whole-exome-sequencing (WES) and RNA-sequencing (RNA-seq) human data, but can also be customised to compare panel data or non-human data.
Environment Modules¶
Run module spider bam-matcher to find out what environment modules are available for this application.
Environment Variables¶
- HPC_BAMMATCHER_DIR - installation directory
- HPC_BAMMATCHER_BIN - executable directory
- HPC_BAMMATCHER_DOC - documentation directory
- HPC_BAMMATCHER_EXE - examples directory
- HPC_BAMMATCHER_CONF - config directory
Citation¶
If you publish research that uses bam-matcher you have to cite it as follows:
Wang, P. P. S., Parker, W. T., Branford, S., & Schreiber, A. W. (2016). pypeR, a Python package for using R in bioinformatics with an application to RNA-Seq data analysis. Bioinformatics, 32(17), 2699–2701. https://doi.org/10.1093/bioinformatics/btw239
Categories¶
phylogenetics