PWM with columns that add up to 1
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clausdkuhn • 0
@clausdkuhn-11810
Last seen 8.0 years ago

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.

biostrings seqlogo pwm • 1.4k views
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Entering edit mode
@marcel-ramos-7325
Last seen 16 days ago
United States

Hi clausdkuhn, 

Please see ?Biostrings::matchPWM for more details. 

 

Regards,

Marcel 

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