divergence_variant_calls: Calls nt positions at which a BAM file differs from a base...
In SLeviyang/RegressHaplo: Haplotype Reconstruction Using Penalized Regression
divergence_variant_calls R Documentation
Calls nt positions at which a BAM file differs from a base BAM file
Description
The pileup of the first BAM file is compared to the consensus of the
second BAM file and positions at which there are disagreements are called
Usage
divergence_variant_calls(BAMfile, b_BAMfile, min_divergence_freq = 0.02)
Arguments
BAMfile
BAM file
b_BAMfile
base BAM file to which BAMfile is to be compared
min_divergenece_freq
minimum frequency for which divergence is called
Details
insertions are ignored in calling divergent positions
Value
A numeric vector of called nt positions.
SLeviyang/RegressHaplo documentation built on June 1, 2022, 10:48 p.m.
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| divergence_variant_calls | R Documentation |
Calls nt positions at which a BAM file differs from a base BAM file
Description
The pileup of the first BAM file is compared to the consensus of the second BAM file and positions at which there are disagreements are called
Usage
divergence_variant_calls(BAMfile, b_BAMfile, min_divergence_freq = 0.02)
Arguments
BAMfile |
BAM file |
b_BAMfile |
base BAM file to which BAMfile is to be compared |
min_divergenece_freq |
minimum frequency for which divergence is called |
Details
insertions are ignored in calling divergent positions
Value
A numeric vector of called nt positions.
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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