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have trouble with bowtie2

what i can do? Thanks

~$ bowtie2 -x '/home/yachen/Desktop/wu_0.v7.fas'  '/home/yachen/Desktop/wu_0_A_wgs.fastq' -S wu_0.bt2.sam
(ERR): "/home/yachen/Desktop/wu_0.v7.fas" does not exist or is not a Bowtie 2 index
Exiting now ...
rna-seq chip-seq
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written by mikysyc2016 mikysyc2016

-x option needs to point to the basename of several files that form the set of index files. What command did you use to create the bowtie2 index?

If you have not created the bowtie2 index then you need to do that first using bowtie2-build command.

• 1 views • link
written by GenoMax GenoMax

I have bowtie2 index. Still thank you for your reply!

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written by mikysyc2016 mikysyc2016

What is the filename of your bowtie2 index?

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written by d-cameron d-cameron

please post ls *.bt2* output (if you are on os X or linux)

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written by cpad0112 cpad0112

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