calcMrkHaptable: produce a table of nr of markers vs nr of haplotypes
In PolyHaplotyper: Assignment of Haplotypes Based on SNP Dosages in Diploids and Polyploids
Description
Usage
Arguments
Value
Examples
View source: R/PolyHaplotyper.R
Description
produce a table of nr of markers vs nr of haplotypes
Usage
1
calcMrkHaptable(ovwFS)
Arguments
ovwFS
a list as produced by overviewFS. Only the first 2 columns of
list item ovw are used
Value
a frequency table with the numbers of haploblocks, with
all combinations of marker counts and inferred haplotype counts per haploblock.
The column with haplotype count NA (if any) shows the haploblocks for which
no haplotype solution was found (the reason for that would usually be found
in column 1 of ovwFS$messages)
Examples
1
2
3
4
5
6
data(PolyHaplotyper_small)
phovw <- overviewByFS(haploblock=phblocks, parents=phpar, FS=phFS,
hapresults=phresults)
# in this small dataset there are only 2 haploblocks, each with 4 markers:
calcMrkHaptable(ovwFS=phovw)
# in both haploblocks 5 haplotypes are inferred
PolyHaplotyper documentation built on June 17, 2021, 5:12 p.m.
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Description Usage Arguments Value Examples
View source: R/PolyHaplotyper.R
Description
produce a table of nr of markers vs nr of haplotypes
Usage
1 | calcMrkHaptable(ovwFS)
|
Arguments
ovwFS |
a list as produced by overviewFS. Only the first 2 columns of list item ovw are used |
Value
a frequency table with the numbers of haploblocks, with all combinations of marker counts and inferred haplotype counts per haploblock. The column with haplotype count NA (if any) shows the haploblocks for which no haplotype solution was found (the reason for that would usually be found in column 1 of ovwFS$messages)
Examples
1 2 3 4 5 6 | data(PolyHaplotyper_small)
phovw <- overviewByFS(haploblock=phblocks, parents=phpar, FS=phFS,
hapresults=phresults)
# in this small dataset there are only 2 haploblocks, each with 4 markers:
calcMrkHaptable(ovwFS=phovw)
# in both haploblocks 5 haplotypes are inferred
|
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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