calc_combP: Calculate the Combined CAnD Test Statistic P-value
In CAnD: Perform Chromosomal Ancestry Differences (CAnD) Analyses
Description
Usage
Arguments
Value
Author(s)
References
Examples
Description
Calculate the combined CAnD test statistic p-value on a set of
ancestry proportions estimated for a particular ancestral
subpopulation of interest
Usage
1
calc_combP(chrAncest)
Arguments
chrAncest
A data.frame holding the ancestral proportions;
each row corresponds to a sample and each column corresponds to a
chromosomal/chromosomal segment ancestry proportion.
Note: only include the proportions for one ancestral population at a time.
Value
A vector of length two where ‘statistic’ is the
combined CAnD statistic and ‘pvalue’ is it's corresponding p-value,
where the combined statistic is combined over all
chromosomes/chromosomal segments included in chrAncest.
Author(s)
Caitlin McHugh
mchughc@uw.edu
References
McHugh, C., Brown, L., Thornton, T.
Detecting heterogeneity in population structure across the genome in admixed populations.
Genetics, 2016.
Examples
1
2
3
4
5
data(ancestries)
euroCols <- grep("Euro",colnames(ancestries))
euro <- ancestries[,euroCols]
res <- calc_combP(euro)
res
CAnD documentation built on Nov. 8, 2020, 8:18 p.m.
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Description Usage Arguments Value Author(s) References Examples
Description
Calculate the combined CAnD test statistic p-value on a set of ancestry proportions estimated for a particular ancestral subpopulation of interest
Usage
1 | calc_combP(chrAncest)
|
Arguments
chrAncest |
A data.frame holding the ancestral proportions; each row corresponds to a sample and each column corresponds to a chromosomal/chromosomal segment ancestry proportion. Note: only include the proportions for one ancestral population at a time. |
Value
A vector of length two where ‘statistic’ is the
combined CAnD statistic and ‘pvalue’ is it's corresponding p-value,
where the combined statistic is combined over all
chromosomes/chromosomal segments included in chrAncest.
Author(s)
Caitlin McHugh mchughc@uw.edu
References
McHugh, C., Brown, L., Thornton, T. Detecting heterogeneity in population structure across the genome in admixed populations. Genetics, 2016.
Examples
1 2 3 4 5 | data(ancestries)
euroCols <- grep("Euro",colnames(ancestries))
euro <- ancestries[,euroCols]
res <- calc_combP(euro)
res
|
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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