[Biopython] BioSeqUtilsMeltingTemp
Stefanie Lück
luecks at gmail.com
Tue Jan 19 07:52:32 UTC 2016
Hello everybody!
First of all I would like to thank you because of the great documentation
of the module I mention above.
However I have a problem. I am trying to calculate the temperature with
Tm_NN by using dangling ends.
I am calling the function like this:
Tm_NN(seq, check=True, strict=True, c_seq=c_seq, shift=1, nn_table=RNA_NN3,
tmm_table=DNA_TMM1, imm_table=DNA_IMM1, de_table=RNA_DE1,
dnac1=25, dnac2=0, selfcomp=False, Na=20, K=50, Tris=0, Mg=0,
dNTPs=0, saltcorr=5)
whereas an example,
seq = GAT
c_seq = TCTA
which means:
-GAT
TCTA
Unfortunately I got a keyerror (KeyError: '.G/TC') because the dictionary
does not contain '.G/TC' but 'CT/G.'
Do I have to supply the two sequences in a different way? I can not find
what I am doing wrong, I supply seq in 5'-3' and c_seq in 3'-5' direction.
Any help would be very appreciated!
Thanks,
Stefanie
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