single_position.error: Determine the frequency error at variable positions
In SLeviyang/RegressHaplo: Haplotype Reconstruction Using Penalized Regression
single_position.error R Documentation
Determine the frequency error at variable positions
Description
Determine the frequency error at variable positions
Usage
single_position.error(pu, haplotypes, freq, minimum_coverage = 1000)
Arguments
pu
A VSeqTools_Pileup object as produced by BAM_pileup
haplotypes
character.vector of haplotypes
freq
numeric.vector of haplotype frequencies
min_coverage
minimum coverage needed to compute errors, otherwise
an NA is returned
Value
a data.frame containing columns pos, error that give
reference position and frequency error at the position. Errors are the
sum of absolute value of frequency error over the nucleotides.
SLeviyang/RegressHaplo documentation built on June 1, 2022, 10:48 p.m.
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| single_position.error | R Documentation |
Determine the frequency error at variable positions
Description
Determine the frequency error at variable positions
Usage
single_position.error(pu, haplotypes, freq, minimum_coverage = 1000)
Arguments
pu |
A VSeqTools_Pileup object as produced by BAM_pileup |
haplotypes |
character.vector of haplotypes |
freq |
numeric.vector of haplotype frequencies |
min_coverage |
minimum coverage needed to compute errors, otherwise an NA is returned |
Value
a data.frame containing columns pos, error that give reference position and frequency error at the position. Errors are the sum of absolute value of frequency error over the nucleotides.
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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