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.Thyssen@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.thyssen@ars.usda.gov
504-286-4280
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