Variant Filtering

Variant filtering can be used to remove variants that are not reliable. This filtered dataset of variants will lead to more reliable and robust results in downstream analysis. Moreover, as this dataset will be smaller, all analysis will go faster. There are two ways to filter variants in OmicsBox:

• General Variant Filtering: with this simple filter you will select different threshold for the main
• dDocent Variant Filtering Pipeline: dDocent has a pipeline to filter VCF files whose variants were sequenced using a RAD-Seq or GBS-like protocol.