User: nick.andrews15

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Posts by nick.andrews15

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Answer: A: HiSAT2 Alignment Rate Dropping with Cufflinks export option enabled
... Mo, Interestingly switching back to HiSAT 1 and using the -dta option for cufflinks yielded a roughly 85% alignment rate. I don't know what could be causing this, but I will use HiSAT for the time being I guess. ...
written 7 months ago by nick.andrews150
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HiSAT2 Alignment Rate Dropping with Cufflinks export option enabled
... I am trying to take trimmed and qc filtered paired RNA seq data and run it through HiSat2 > Stringtie > Cuffdiff for DE analysis. I am getting some interesting behavior with the HiSat2 alignment percentages. When the Report alignments tailored specifically for Cufflinks option is checked in ...
hisat2 cufflinks rna-seq written 7 months ago by nick.andrews150 • updated 7 weeks ago by Widmer, Giovanni140
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Trying to install and run Ballgown on AWS Galaxy instance
... I am trying to install and run Ballgown on my private AWS galaxy instance for RNA-seq differential expression analysis. I have installed the package_ballgown_1_0_3 from the tool shed and ballgown is listed under tool dependencies. I am fairly new to galaxy. How do I go about getting this tool to ...
rna-seq written 7 months ago by nick.andrews150

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