User: f.dinesh

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f.dinesh0
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Posts by f.dinesh

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Comment: C: Does bowtie2 take gz input files?
... Exactly thanks! The brackets were confusing me, all good now! ...
written 11 months ago by f.dinesh0
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Comment: C: Does bowtie2 take gz input files?
... Yes I did run the code with the gz files and it failed saying that there is no such directory. I unzipped the files and ran the same code and its running so I think it works. But i'm sure that it should accept gz files, the manual says it does. I'm wondering what is the difference between these pie ...
written 11 months ago by f.dinesh0
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Does bowtie2 take gz input files?
... Hi I'm trying to properly input files to bowtie2 and I'm first of all confused if bowtie2 can take fq.gz files or not? or do they need to be unizipped first (.fq)? Thanks, Dinesh ...
bowtie2 gzip input gz fq.gz gzip written 11 months ago by f.dinesh0 • updated 10 months ago by Biostar ♦♦ 20
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Comment: C: BBDuk does not remove all adapters
... Appreciate the support and clarity! ...
written 12 months ago by f.dinesh0
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Comment: C: BBDuk does not remove all adapters
... So I was running the code above in parallel with writing the post. My previous code (not posted here) did not have hdist, tpe or tbo and I was getting the left over adapters. When I added hdist, tpe, tbo, to the code it removed all the adapter sequences. [Adapters are gone][1] [1]: https://imgu ...
written 12 months ago by f.dinesh0
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BBDuk does not remove all adapters
... Hey all, I'm just getting into rna-seq analysis and have run into a problem that's is very confusing. I ran multiplexed RNAseq samples on a Hiseq, paired end, 100bp, reads. The data was demultiplexed and what I thought was trimmed (I used illumina truseq index primers). So I run my R1 & R2 rea ...
trimming bbduk rna-seq truseq adapters written 12 months ago by f.dinesh0 • updated 12 months ago by genomax89k

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