I'm trying to create a RNA-Seq Workflow with Bowtie/Tophat and Cufflinks using
a newly assembled genome (not public). I created the genome index files via
Bowtie locally but Galaxy will not accept the .ebwt index files
(n=4)--"Inappropriate content" error.
Second, for some reason, the Illumina fastq files will not load on the web
version or my local version either.
(FYI, I successfully ran these same files through our local command line
version of Tophat and Cufflinks without problems)
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