Question: Install Tool Shed GMAP
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gravatar for josehiginio.dopeso
19 months ago by
josehiginio.dopeso0 wrote:

Hello,

I am new to galaxy. I am analizing some data RNA-seq obtained from EGA depository.

I am using the galaxy cluster

I like make the aligment. It is possible with this conditions are indicated in the original paper

http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4024760/

GSNAP version ‘2012-01-11’, allowing maximum of two mismatches per 75 base sequence (parameters: ‘-M 2 -n 10 -B 2 -i 1 -N 1 -w 200000 -E 1 --pairmax-rna=200,000’)

However i do not know if this option is avalaible or i have to install a packet. I was checking the turioals but really not veru familiar with it.

I hope you can help me.

Thanks

rna-seq • 317 views
ADD COMMENTlink modified 19 months ago by Martin Čech ♦♦ 4.2k • written 19 months ago by josehiginio.dopeso0
0
gravatar for Martin Čech
19 months ago by
Martin Čech ♦♦ 4.2k
United States
Martin Čech ♦♦ 4.2k wrote:

You cannot install tools on the public server at usegalaxy.org. In case your needed tool is not present you can set up your own Galaxy on your hardware or in the cloud and install the tools you need. https://wiki.galaxyproject.org/Admin/GetGalaxy

ADD COMMENTlink modified 19 months ago • written 19 months ago by Martin Čech ♦♦ 4.2k
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