[Biopython] Getting ABI peak values from ABI file

[Peter Cock]

Hi Eric,

I think you want the raw DATA1, DATA2, DATA3 and DATA4 values (for the
four bases) which are exposed via the Biopython ABI parser, e.g.

from Bio import SeqIO
record = SeqIO.read("310.ab1", "abi")
print(record.annotations['abif_raw']['DATA1'])

See also http://www.appliedbiosystem.com/support/software_community/ABIF_File_Format.pdf

Peter

On Fri, Oct 7, 2016 at 3:06 PM, Eric Ma <ericmajinglong at gmail.com> wrote:
> I'd like to view the ABI peak values that are used for drawing
> chromatograms, but I'm not quite sure how to do this using the BioPython
> API. I've searched on the AbiIO documentation, and peeked at the source
> code, but still could not see how to do this. Is it possible?
>
> I've already tried hunting around on the internet, but the closest I could
> find for an answer was:
> http://biology.stackexchange.com/questions/35852/view-abi-chromatogram-plots-with-python,
> in which Peter mentioned that the chromatogram data should be exposed in
> 1.66.
>
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