varcallCandidates: Find variant call candidates from a sam file line
In jweile/yogiseq: Lightweight sequence analysis package
varcallCandidates R Documentation
Find variant call candidates from a sam file line
Description
Interpret the CIGAR and MDZ strings to construct a
table of variant base calls
Usage
varcallCandidates(flagV, mdzStr, cigarStr, startPos, readSeq, readQual)
Arguments
flagV
vector of flags (from samStreamer)
mdzStr
MD:Z string from sam
cigarStr
CIGAR string from sam
startPos
alignment start position from sam
readSeq
read sequence from sam
readQual
quality string from sam
Value
a table of all variant base calls
jweile/yogiseq documentation built on July 8, 2022, 12:48 a.m.
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| varcallCandidates | R Documentation |
Find variant call candidates from a sam file line
Description
Interpret the CIGAR and MDZ strings to construct a table of variant base calls
Usage
varcallCandidates(flagV, mdzStr, cigarStr, startPos, readSeq, readQual)
Arguments
flagV |
vector of flags (from samStreamer) |
mdzStr |
MD:Z string from sam |
cigarStr |
CIGAR string from sam |
startPos |
alignment start position from sam |
readSeq |
read sequence from sam |
readQual |
quality string from sam |
Value
a table of all variant base calls
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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