consensus: Returns a consensus sequence given a VSeqTools_pileup object
In SLeviyang/RegressHaplo: Haplotype Reconstruction Using Penalized Regression
consensus R Documentation
Returns a consensus sequence given a VSeqTools_pileup object
Description
Given a pileup, a consensus sequence is determined at each position
on the reference. The consensus is returned as a character vector
with possible entries A, C, G, T, d, i.
Usage
consensus(pu)
Arguments
pu
a VSeqTools_pileup object returned by BAM_pileup
Value
A character vector with entries A,C,G,T,d,i and length equal to
positions on reference.
Warning: if the VSeqTools_pileup object is formed from a BAM file
with gaps, the consensus will skip missed positions.
SLeviyang/RegressHaplo documentation built on June 1, 2022, 10:48 p.m.
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| consensus | R Documentation |
Returns a consensus sequence given a VSeqTools_pileup object
Description
Given a pileup, a consensus sequence is determined at each position on the reference. The consensus is returned as a character vector with possible entries A, C, G, T, d, i.
Usage
consensus(pu)
Arguments
pu |
a VSeqTools_pileup object returned by BAM_pileup |
Value
A character vector with entries A,C,G,T,d,i and length equal to positions on reference.
Warning: if the VSeqTools_pileup object is formed from a BAM file with gaps, the consensus will skip missed 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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