Question: Convert Rat to Human region cordinates
0
gravatar for aleix.arnau1990
4.2 years ago by
United Kingdom
aleix.arnau199010 wrote:

Dear all,

 

I have regions from a human genome and I want to get the equivalent regions in rat genome. I saw a paper which use galaxy to do it but the lift-over convert genome coordinates tool doesn't work (I don't know why). My data looks like this:

#chr     #start_position   #end_position

1          12123                   2342354

13        35235                  2352352

X           235235               4565757

Could someone tell me how can I convert these regions from human genome to rat genome?

Tanks!

 

 

 

 

galaxy • 1.0k views
ADD COMMENTlink modified 4.2 years ago by PoGibas4.8k • written 4.2 years ago by aleix.arnau199010
0
gravatar for PoGibas
4.2 years ago by
PoGibas4.8k
Vilnius
PoGibas4.8k wrote:

Try to reformat your data into bed format (something like this):

chr1    12123    2342354
chr13    35235    2352352
chrX    235235    4565757

and convert them using online liftOver.

ADD COMMENTlink modified 4.2 years ago • written 4.2 years ago by PoGibas4.8k
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