filterMTvars: sanitize PASSing mitochondrial variant calls to a moderate...
In MTseeker: Bioconductor Tools for Human Mitochondrial Variant Analysis
Description
Usage
Arguments
Value
Examples
Description
sanitize PASSing mitochondrial variant calls to a moderate degree
Usage
1
filterMTvars(vars, fp = TRUE, NuMT = 0.03, covg = 20)
Arguments
vars
an MVRanges or MVRangesList (will be unlisted and relisted)
fp
use false positive filter[s]? (TRUE: use Triska fpFilter)
NuMT
variants with VAF < [this number] will be presumed NuMTs (0.03)
covg
minimum median read coverage across chrM to be considered (20)
Value
a filtered set of variants
Examples
1
2
library(MTseekerData)
filterMTvars(RONKSvariants$RO_1)
MTseeker documentation built on Oct. 31, 2019, 3:20 a.m.
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Description Usage Arguments Value Examples
Description
sanitize PASSing mitochondrial variant calls to a moderate degree
Usage
1 | filterMTvars(vars, fp = TRUE, NuMT = 0.03, covg = 20)
|
Arguments
vars |
an MVRanges or MVRangesList (will be unlisted and relisted) |
fp |
use false positive filter[s]? (TRUE: use Triska fpFilter) |
NuMT |
variants with VAF < [this number] will be presumed NuMTs (0.03) |
covg |
minimum median read coverage across chrM to be considered (20) |
Value
a filtered set of variants
Examples
1 2 | library(MTseekerData)
filterMTvars(RONKSvariants$RO_1)
|
R Package Documentation
Browse R Packages
We want your feedback!
Note that we can't provide technical support on individual packages. You should contact the package authors for that.
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