Abstract: Source code for a filtration script for genetic variant matrices in Variant Call Format (VCF) to remove sites with excessive missing data, low minor allele frequencies or high proportions of heterozygous calls. The script is implemented in the AWK scripting language. The source is maintained in a Bitbucket repository (https://bitbucket.org/ipk_dg_public/vcf_filtering). The version available here is commit 9c68cd2.
License: CC BY 4.0 (Creative Commons Attribution)
DOI: 10.5447/ipk/2022/15
Content: 0 Directories 2 Files (2.9 KB)
| CONTRIBUTOR: | |
| CREATOR: |
Martin Mascher
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| PUBLISHER: | Leibniz Institute of Plant Genetics and Crop Plant Research (IPK), Seeland OT Gatersleben, Corrensstraße 3, 06466, Germany |
| SIZE: | 1.5 KB |
| SUBJECT: | genetic variation, genomics, bioinformatics, AWK, source code |