Question: error in bowtie 2
1
gravatar for mra8187
2.1 years ago by
mra818720
mra818720 wrote:

Dear all When I use bowtie 2 i get this error What can I do ?

(ERR): bowtie2-align exited with value 137

rna-seq • 837 views
ADD COMMENTlink modified 2.1 years ago • written 2.1 years ago by mra818720

Could you provide some more details,like the command you gave etc..

ADD REPLYlink written 2.1 years ago by Jeffin Rockey1.1k

In addition to what Jeffin Rockey said, since you tagged this as "rna-seq", you should be warned that bowtie2 is not appropriate for RNAseq data. Use STAR or something similar instead.

ADD REPLYlink written 2.1 years ago by Devon Ryan89k

Unless it's prokaryotic RNA-seq?

ADD REPLYlink written 2.1 years ago by WouterDeCoster38k

Yes its RNA seq from cow ...

ADD REPLYlink written 2.1 years ago by mra818720

Please use ADD REPLY to answer to earlier comments, as such this thread remains logically structured and easy to follow.

For RNA-seq alignment of eukaryotic genomes you need a spliced aligner, most recommended nowadays are STAR and HISAT2.

ADD REPLYlink written 2.1 years ago by WouterDeCoster38k
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