new in bowtie...

[dror]

Hey all, its the first time that i am using bowtie, so be tolerant .
When i tried to create an index , i didnt sucseed to create the "rev" files.

i saved my data at the main folder, in fastq format.
then i tried the "bowtie-build"..
then i had to get 2 "rev" files? but i am not...

what am i doing wrong?

thanks..

[adamdeluca]

I would recommend downloading one of the prebuilt indicies from ftp://ftp.cbcb.umd.edu/pub/data/bowtie_indexes/ (also listed on the main page right side).

If you need to build a custom index the bash script that comes with the prebuilt indicies is very helpful.