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Last data update: 2014.03.03
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R: Read haplotype data, selected by region of interest, from a...
| read.haplo.shapeit_haps | R Documentation |
Read haplotype data, selected by region of interest, from a .haps file
(regular ShapeIt output files)
Description
Read haplotype data, selected by region of interest, from a .haps file
(regular ShapeIt output files)
Usage
read.haplo.shapeit_haps(filename, map, chr, startpos, endpos)
Arguments
filename |
character, path to a .haps file containing
haplotype data which is regular ShapeIt output. See
https://mathgen.stats.ox.ac.uk/genetics_software/shapeit/shapeit.html#hapsample
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map |
object, data.frame contains 3 columns: rsID, chromosome,
position in bp as output by e.g. readMapFile.
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chr |
character, chromosome number (basically from 1 to 22 as used by
Plink),
on which the region of interest is located
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startpos |
numeric, start position (in bp, base pairs) of the
region of interest (default: 0)
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endpos |
numeric, end position (in bp, base pairs) of the
region of interest (default: 0)
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Value
matrix object containing the haplotypes selected by the
region of interest
See Also
read.haplo,
read.haplo.pedfile,
read.haplo.bedfile,
readMapFile
Results
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providing 
.