ReviewConsensusVariants
Related Docs:
class ReviewConsensusVariants
| package umi
Detailed information produced by ReviewConsensusVariants on variants called in consensus reads.
Detailed information produced by ReviewConsensusVariants on variants called in consensus reads. Each
row contains information about a consensus _read_ that carried a variant or non-reference allele at a
particular variant site.
The first 10 columns (up to N) contain information about the variant site and are repeated for each
consensus read reported at that site. The remaining fields are specific to the consensus read.
The chromosome on which the variant exists.
The position of the variant.
The reference allele at the position.
The genotype of the sample in question.
The set of filters applied to the variant in the VCF.
The count of A observations at the variant locus across all consensus reads.
The count of C observations at the variant locus across all consensus reads.
The count of G observations at the variant locus across all consensus reads.
The count of T observations at the variant locus across all consensus reads.
The count of N observations at the variant locus across all consensus reads.
The consensus read name for which the following fields contain values.
A description of the insert that generated the consensus read.
The base call from the consensus read.
The quality score from the consensus read.
The number of As in raw-reads contributing to the consensus base call at the variant site.
The number of Cs in raw-reads contributing to the consensus base call at the variant site.
The number of Gs in raw-reads contributing to the consensus base call at the variant site.
The number of Ts in raw-reads contributing to the consensus base call at the variant site.
The number of Ns in raw-reads contributing to the consensus base call at the variant site.