Bowtie build output folder

Question

[netsam]

Hi, I would like to put the output files from Bowtie index build command into a folder different from current. Is there a way to insert a path for output index files into the bowtie-build command? Or a config file to change default directory?

[netsam]

Thanks very much. I'll bother you for other question about configuring a server for my lab. Thanks again !!

Answer 1

[ATpoint]

mkdir OutputFolder
bowtie-build your.fasta ./OutputFolder/your_index_prefix