Hi Greg,

You can do this using the "Compute" tool in the Text Manipulation
section.  Your expression in this case, to add a column with the
number of "A" nucleotides in column 1, would be something like:
str(c1).count("A")

Thanks for using Galaxy!

-Dannon

On Fri, Mar 15, 2013 at 5:05 PM, Thyssen, Gregory - ARS
<gregory.thys...@ars.usda.gov> wrote:
> Dear Galaxy Community
>
> I frequently use pileup files in galaxy.
>
> The sequence read column contains characters like .,AaCcTtGgNn$* etc.
>
> I would like to be able to add a column to my tables that represents the
> number of instances of a given character in the read column.
>
>
>
> I can do this in excel with this type of formula:
>
> =len(I2)-len(substitute(I2,”A”,””)
>
>
>
> But of course, Excel can only handle a limited number of total lines.
>
>
>
> Do we have this functionality in Galaxy?
>
> If so how?
>
> If not….. please?
>
>
>
> Thank you,
>
>
>
> Gregory Thyssen, PhD
>
> Molecular Biologist
>
> Cotton Fiber Bioscience
>
> USDA-ARS-Southern Regional Research Center
>
> 1100 Robert E Lee Blvd
>
> New Orleans, LA 70124
>
> gregory.thys...@ars.usda.gov
>
> 504-286-4280
>
>
>
>
>
>
>
>
>
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