vcf_parseNextSNP: Read until next SNP or next line and buffer it
In WhopGenome: High-Speed Processing of VCF, FASTA and Alignment Data
Description
Usage
Arguments
Details
Value
Author(s)
See Also
Examples
Description
Read until next SNP or next line and buffer it. Use the vcf_getXXX functions to access specific fields of the line
Usage
1
2
vcf_parseNextSNP(vcffh)
vcf_parseNextLine(vcffh)
Arguments
vcffh
VCF file handle
Details
Use .Call("VCF_parseNextSNP", vcffh ) and .Call("VCF_parseNextLine", vcffh ) respectively, to eliminate the overhead of using the R wrapper function.
Value
None.
Author(s)
Ulrich Wittelsbuerger
See Also
vcf_isSNP, vcf_open, vcf_getPos
Examples
1
2
3
vcffile <- vcf_open( system.file( "extdata", "ex.vcf.gz" , package="WhopGenome") )
vcf_parseNextSNP( vcffile )
vcf_getPos( vcffile )
WhopGenome documentation built on May 1, 2019, 10:12 p.m.
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Description Usage Arguments Details Value Author(s) See Also Examples
Description
Read until next SNP or next line and buffer it. Use the vcf_getXXX functions to access specific fields of the line
Usage
1 2 | vcf_parseNextSNP(vcffh)
vcf_parseNextLine(vcffh)
|
Arguments
vcffh |
VCF file handle |
Details
Use .Call("VCF_parseNextSNP", vcffh ) and .Call("VCF_parseNextLine", vcffh ) respectively, to eliminate the overhead of using the R wrapper function.
Value
None.
Author(s)
Ulrich Wittelsbuerger
See Also
vcf_isSNP, vcf_open, vcf_getPos
Examples
1 2 3 | vcffile <- vcf_open( system.file( "extdata", "ex.vcf.gz" , package="WhopGenome") )
vcf_parseNextSNP( vcffile )
vcf_getPos( vcffile )
|
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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