motif scanning using position frequncy matrix of motif in a given set of DNAstringset sequnces?.
0
0
Entering edit mode
vinod.acear ▴ 50
@vinodacear-8884
Last seen 4.2 years ago
India

Hi I have given set of sequences as DNAstringset and  position frequncy matrix of desired motif, out of these sequences some of them have  only one desired motif  in them at different location ( unkown). Please suggest me the method, to find highest scoring motif location in the DNAstringset sequences.

motifdb matchpwm motif pwmenrich pwm • 1.6k views
ADD COMMENT
0
Entering edit mode

Hello vinod.acear!

Questions similar to yours can already be found at:

H.

ADD REPLY
0
Entering edit mode

Hi Herve i used MEME server to discover motif PFM (position frequency matrix) but now i need to use that motif to scan this type of motif on other set of sequences.Note: Both Problems are different. Till now i have used matchPWM of but it is not giving highest scoring match and giving multiple Motif on scan a sequence.  

ADD REPLY
0
Entering edit mode

True. Sorry for that. I re-opened your question.

H.

ADD REPLY

Login before adding your answer.

Traffic: 552 users visited in the last hour
Help About
FAQ
Access RSS
API
Stats

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.

Powered by the version 2.3.6