Code:
findMotifs.pl input.fa fasta ./Output -fastaBg bg.fa -len 8,10,12 -norevopp
9 results in 0.0022 seconds.
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Forum:Problem with homer in findMotifs.pl when using input and bg fasta
I am using the following command:
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Motif search upstream of ORFs
Hi All,
I am having some issues filtering out results from motif searches that I've done and I am wondering if anyone can suggest a better... -
Background regions for de novo Motif Discovery?
Hello everyone,
I posted this also on Biostars a couple of days ago, not sure where I can find someone to help me.
I'm trying... -
Finding motif in DNA sequence region
Hi, All,
I'm a new PhD student in this field, and new here. I found many amazing stuffs in this Forum.
Now, I'm involving into a... -
Motif finding for many clusters
I thought this might well be useful for some: when you have to do motif finding for a large number of gene clusters it can be a challenge processing all...Last edited by SaschaOtt; 09-26-2014, 10:57 AM. -
Finding motifs in 5' of genes
Hi,
I have a list of differentially expressed genes that I would like to search for a 5' utr motif in them.
What tool would you... -
MEME parameters
Have anyone here used MEME tools? Specifically with de novo motif discovery using meme
Can you share your experience on choosing the parameters,... -
A question on cisgenome
Dear All,
I am running cisgenome to identify known motif mapping of chipseq TF data on Windows GUI. Using one motif matrix and mm9 mouse...Last edited by victoryhe; 11-09-2011, 07:27 AM. -
HMS, motif finding tool for ChIP-Seq
This is such a nice forum. I am impressed by the experience and enthusiasm of you guys. I just want to bring your attention to a paper we just published:...
