Question: Install Tool Shed GMAP
0
gravatar for josehiginio.dopeso
2.0 years 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 • 418 views
ADD COMMENTlink modified 2.0 years ago by Martin Čech ♦♦ 4.6k • written 2.0 years ago by josehiginio.dopeso0
0
gravatar for Martin Čech
2.0 years ago by
Martin Čech ♦♦ 4.6k
United States
Martin Čech ♦♦ 4.6k 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 2.0 years ago • written 2.0 years ago by Martin Čech ♦♦ 4.6k
Please log in to add an answer.

Help
Access

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 16.09
Traffic: 117 users visited in the last hour