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Updated: Mar 21, 2026
Detection of Copy Number Alterations Using Single Cell Sequencing
Published on: February 17, 2017
BAM-matcher: a tool for rapid NGS sample matching
Paul P S Wang1, Wendy T Parker2, Susan Branford3
1Department of Genetics and Molecular Pathology, and ACRF Cancer Genomics Facility, Centre for Cancer Biology, SA Pathology, Adelaide, Australia.
Unlabelled:
The standard method used by high-throughput genome sequencing facilities for detecting mislabelled samples is to use independently generated high-density SNP data to determine sample identity. However, as it has now become commonplace to have multiple samples sequenced from the same source, such as for analysis of somatic variants using matched tumour and normal samples, we can directly use the genotype information inherent in the sequence data to match samples and thus bypass the need for additional laboratory testing. Here we present BAM-matcher, a tool that can rapidly determine whether two BAM files represent samples from the same biological source by comparing their genotypes. BAM-matcher is designed to be simple to use, provides easily interpretable results, and is suitable for deployment at early stages of data processing pipelines.
Availability And Implementation:
BAM-matcher is licensed under the Creative Commons by Attribution license, and is available from: https://bitbucket.org/sacgf/bam-matcher
Supplementary Information:
Supplementary data are available at Bioinformatics online.
Contact:
paul.wang@sa.gov.au.
