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We will go through a simple and more complex example on how to use PCAngsd with visualization of the data. | We will go through a simple and more complex example on how to use PCAngsd with visualization of the data. | ||
=PCA with admixture aware priors= | |||
This example will perform a PCA analysis on 1000 genotype likelihoods. | |||
===Set paths=== | |||
First, set the paths to the program and the input file every time you open a new terminal window. | |||
Set the path to PCAngsd, for example: | |||
NGSADMIX=~/Software/NGSadmix | |||
Test the link | |||
ls $NGSADMIX | |||
Set the path to the input file, for example: | |||
Revision as of 13:23, 29 July 2019
We will go through a simple and more complex example on how to use PCAngsd with visualization of the data.
PCA with admixture aware priors
This example will perform a PCA analysis on 1000 genotype likelihoods.
Set paths
First, set the paths to the program and the input file every time you open a new terminal window.
Set the path to PCAngsd, for example:
NGSADMIX=~/Software/NGSadmix
Test the link
ls $NGSADMIX
Set the path to the input file, for example: