alleleCounts: Return allele counts from a genofile based on read counts
In bahlolab/moimix: Estimating mulitplicity of infection from high-throughput sequencing data
Description
Usage
Arguments
Details
Value
View source: R/seqarray_process_coverage.R
Description
Return allele counts from a genofile based on read counts
Usage
1
alleleCounts(gdsfile)
Arguments
gdsfile
a SeqVarGDSClass object
Details
If ref.allele = NULL, the function returns a list
of matrices corresponding to the read counts of the reference and alternate
alleles respectively, while if ref.allele = 0L or ref.allele = 1L
the function returns a matrix corresponding the reference or alternate
read counts. Currently, the AD tag formats from varscan2re and GATK
are supported.
Value
an alleleCounts matrix object, which is a list containg the
bahlolab/moimix documentation built on April 16, 2020, 8:40 a.m.
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Description Usage Arguments Details Value
View source: R/seqarray_process_coverage.R
Description
Return allele counts from a genofile based on read counts
Usage
1 | alleleCounts(gdsfile)
|
Arguments
gdsfile |
a |
Details
If ref.allele = NULL, the function returns a list
of matrices corresponding to the read counts of the reference and alternate
alleles respectively, while if ref.allele = 0L or ref.allele = 1L
the function returns a matrix corresponding the reference or alternate
read counts. Currently, the AD tag formats from varscan2re and GATK
are supported.
Value
an alleleCounts matrix object, which is a list containg the
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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