Smartpca using Eigensoft
0
0
Entering edit mode
18 months ago
rosy • 0

I am using eigensoft (smartPCA) to do PCA by

./smartpca.perl -i my.bed -a my.pedsnp -b my.pedind -o output.pca -p output.plot -e output.eval -m 10 -s 5 -l output.log

I also tried using example files in CONVERTF folder

./smartpca.perl -i example.bed -a example.pedsnp -b example.pedind -o output.pca -p output.plot -e output.eval -m 10 -s 5 -l output.log

but I got this error in both the cases

sh: smartpca: command not found

OOPS couldn't open file output.pca.evec for reading at ./smartpca.perl line 65. The eigensoft version I am using is latest(7.2.1) please help me to resolve this issue

smartpca • 660 views
ADD COMMENT
0
Entering edit mode
ADD REPLY

Login before adding your answer.

Traffic: 1771 users visited in the last hour
Help About
FAQ
Access RSS
API
Stats

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.

Powered by the version 2.3.6