This is a test version of Biostars. For the public version, visit https://www.biostars.org.
bowtie inspect error

We inserted this command bowtie-inspect -s mm9 and got this error Could not locate a Bowtie index corresponding to basename "mm9" Command: bowtie-inspect --wrapper basic-0 -s mm9 what is it mean?

software error

Use the complete path to the index file with exact genome version suffix.

2 answers

It means that mm9.1.bt2 and the other indexes for that genome aren't in your current directory. You probably want bowtie2-inspect /path/to/index/files/mm9.

Also, I assume you're actually using bowtie2, rather than bowtie (if not, stop doing that).

thank you dear Devon Ryan I get my answer

Log in to answer this question.