[galaxy-user] How to clip multiple adapter sequences in Penn State Galaxy? Thank.

Hi All, In " Clip adapter sequences" option of Penn State Galaxy, I choose "Enter custom sequence" under "Source", and I can only enter One custom clipping sequence. So how can I enter another 3 adapter sequences which I want to clip.  In addition, In "What it does" it shows: This tool clips ad

[galaxy-user] How to analyze Genes Differential Expression using Galaxy? Thanks.

Hi All, Now I have two  Paired-End samples data ( they are  Next Generation Sequence Data and fastq format) generated from Illumina GA II. Let's say Data Lane1 and Data Lane2. After Quality trimming and Adapter trimming, I want to check the Genes Differential Expression between these two sample

[galaxy-user] Problem in merging two BAM file in Galaxy. Thanks for help.

Hi All, I tried many times to merge two BAM files (3.3 GB and 7.7MB) using different versions of Galaxy. But every time I only  got an empty file and it showed some info like this: [Wed Sep 14 08:56:06 EDT 2011] net.sf.picard.sam.MergeSamFiles done. Elapsed time: 0.02 minutes. Runtime.totalMem

[galaxy-user] How to combine two Reference Genome (Files) In Galaxy?

Hi all, I have two reference (genome) files. Let's say EAB_FB_MG.fa(total37972 sequences/contigs) and EAB_FB.fa(21272 sequences/contigs). I know there are some common contigs between them. How could I combine/merge them to get a new reference file with all unique contigs (without duplicates)?