ContEst
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Application data |
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| Biological application domain(s) | Metagenomic sequencing |
|---|---|
| Principal bioinformatics method(s) | Sequencing quality control |
| Maintained? | Maybe |
| Input format(s) | VCF, BAM |
| Programming language(s) | Java |
| Interface type(s) | Command line |
| Resource type(s) | Command-line tool |
| Licence | BSD |
Summary: GATK tool to estimate amount of cross-individual contaminating sequence in a dataset
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Description
Cross-contamination of samples in a large sequencing facility is inevitable, even with elaborate safeguards. ContEst estimates the degree of such contamination in a sequencing dataset, using known population allele frequencies and microarray measurements.
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