Opening Vcf File With Vcftools

Question

[J888]

Hi I just installed vcftools and I'm trying to get acquainted with it. However, I can't seem to open a file!

1 Is there something obviously wrong in the command line below?

**dhcp025000:~/Desktop/vcftools_0.1.6/cpp J888$ ./vcftools --vcf CEU.low_coverage.2010_07.genotypes.vcf

Error:Could not open VCF file: CEU.low_coverage.2010_07.genotypes.vcf**

2 Also, is there a way to run vcftools from bash without having to invoke the executable in each command? For example ./vcftools command

Many thanks in advance

[2184687-1231-83-]

on ~/.bashrc, add a line like this: alias commandX="/path/to/vcftools commandx"

Answer 1

[Mdeng]

Hi,

for the second issue: You should get in touch wie these two file "~/.bashrc" and "~/.bash_profile". Sometimes it depends on your distribution, but these are the files to set environment variables. If it's getting more complex, create an alias.

with best