error in bowtie 2

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7.7 years ago

mra8187 ▴ 20

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

(ERR): bowtie2-align exited with value 137

RNA-Seq • 2.1k views

ADD COMMENT • link 7.7 years ago by mra8187 ▴ 20

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

ADD REPLY • link 7.7 years ago by Jeffin Rockey ★ 1.3k

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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 REPLY • link 7.7 years ago by Devon Ryan 104k

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Unless it's prokaryotic RNA-seq?

ADD REPLY • link 7.7 years ago by WouterDeCoster 47k

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Yes its RNA seq from cow ...

ADD REPLY • link 7.7 years ago by mra8187 ▴ 20

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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 REPLY • link 7.7 years ago by WouterDeCoster 47k

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