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Question: PWM with columns that add up to 1
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gravatar for clausdkuhn
10 months ago by
clausdkuhn0
clausdkuhn0 wrote:

Hi,

I am trying to use SeqLogo to analyze small RNA-seq data.

However, when I am generating a Position Weight Matrix (PWM) from my data, I can only generate a PWM with probability values that do not add up to 1.

Unfortunately this is the requirement to run seqLogo.

So, my question is: How can I generate a PWM from my fasta input file with colums adding up to 1 ??

Thanks a lot for your help,

 

Claus.

ADD COMMENTlink modified 10 months ago by Marcel Ramos ♦♦ 60 • written 10 months ago by clausdkuhn0
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gravatar for Marcel Ramos
10 months ago by
Marcel Ramos ♦♦ 60
United States
Marcel Ramos ♦♦ 60 wrote:

Hi clausdkuhn, 

Please see ?Biostrings::matchPWM for more details. 

 

Regards,

Marcel 

ADD COMMENTlink written 10 months ago by Marcel Ramos ♦♦ 60
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