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CAnD (version 1.4.0)

Perform Chromosomal Ancestry Differences (CAnD) Analyses

Description

Functions to perform the CAnD test on a set of ancestry proportions. For a particular ancestral subpopulation, a user will supply the estimated ancestry proportion for each sample, and each chromosome or chromosomal segment of interest. A p-value for each chromosome as well as an overall CAnD p-value will be returned for each test. Plotting functions are also available.

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Version

Version

1.4.0

License

Artistic-2.0

Maintainer

Caitlin McHugh

Last Published

February 15th, 2017

Functions in CAnD (1.4.0)

Create a Barplot of Ancestry Proportion Estimates for Every Sample and a Given Chromosome or Chromosomal Region

Peform the CAnD Test

Sample Chromosomal Proportions of Ancestral Subpopulations to Use for CAnD Testing

BonfCorr-methods

~~ Methods for Function BonfCorr ~~

getDiffMatrices

Calculate the Mean Ancestry Proportion Excluding Each Chromosome/Chromosomal Segment in Turn

Calculate the Combined CAnD Test Statistic P-value

Create a Plot of P-Values for Each Chromosome or Chromosomal Region

~~ Methods for Function test ~~

overallpValue-methods

~~ Methods for Function overallpValue ~~

pValues-methods

~~ Methods for Function pValues ~~

overallStatistic-methods

~~ Methods for Function overallStatistic ~~

CAnDResult-class

Class "CAnDResult"