[galaxy-user] miRNA-seq help

2013-10-11 Thread Gabriel Calvin
Hi, I'm new to Galaxy and am trying to view several miRNA datasets as a differential expression. The pipeline I'm using is Bowtie for Illumina (paired-end run) SAM-to-BAM ? xls. The references I used with Bowtie are a mature miRNA fasta and a piRNA fasta and the reads are 30nt in length. So,

Re: [galaxy-user] miRNA-seq help

2013-10-11 Thread Gabriel Calvin
The organism is fruit fly. The piRNA reference sequence was obtained from http://www.fruitfly.org/p_disrupt/TE.html as FASTA.FORMAT.v9.4.1. I will check out those programs. Gabriel ___ The Galaxy User list should be used for the discussion

Re: [galaxy-user] miRNA-seq help

2013-10-14 Thread Gabriel Calvin
, 2013 at 3:20 PM, Gabriel Calvin gac4...@gmail.com wrote: The organism is fruit fly. The piRNA reference sequence was obtained from http://www.fruitfly.org/p_disrupt/TE.html as FASTA.FORMAT.v9.4.1. I will check out those programs. Gabriel