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
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.