[galaxy-user] Question about megablast

I have a question about megablast, I want to megablast my seq: the databases mentioned include (against target databases): htgs27 nt27 wgs 09 phiX174 How can I find details about these databases and which one is human or mouse or may be best for my case. Thanks Vasu

Re: [galaxy-user] Tophat paired end read

Hello Jiwen, No, you do not need to join the files for the quality processing. Hopefully this helps! Best, Jen Galaxy team On 4/9/12 9:14 AM, 杨继文 wrote: Hi all, I have paired end RNA-Seq reads ( Illumina Hiseq 2000) in seperate files. Before mapping, I need to trim the reads. My questions

Re: [galaxy-user] Question about megablast

Hello Vasu, These databases contain sequences from all species in the divisions. The number indicates the release version. The actual source is: ftp://ftp.ncbi.nlm.nih.gov/blast/db/FASTA/ A description of each division's contents can be found at: http://www.ncbi.nlm.nih.gov/genbank The

Re: [galaxy-user] Tophat paired end read

Jiwen, I wonder if you are thinking about the situation where you could be discarding reads that are to short after trimming?. In that case you could be getting the two files out of sync. If this is the case, I think you do need to join the files first, do the trimming and then take them apart

Re: [galaxy-user] permissions on folder created by Galaxy

Hello, I am going to forward your question over to the galaxy-...@bx.psu.edu mailing list so that it can get more visibility in the development community. That list is probably where you will want to post regarding similar topics in the future: http://wiki.g2.bx.psu.edu/Support#Mailing_Lists