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Can I suggest/request the creation of "badges" (in the style of shields.io) for use on repositories that depend on the BioPython project?
I have taken the liberty of creating candidates here:
(Ed…
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Hi,
First off, thanks for a great piece of software - I have used Biopython a lot and it's made my life so much easier.
I would like to run PSI-blast over the Internet using Biopython. I haven't fo…
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Hi,
I am a little concerned with the import statement "from bio import *" as it is too similar to that of using Biopython - "from Bio import *"
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Greetings,
I am interested in running the UDiTaS pipeline. I notice that Bio.Alphabet is removed from Biopython since version 1.78. Your code uses it in uditas/uditas_helpers.py, IUPAC.unambig…
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As of 19 Feb 2024, af2_binder_design.yml will install biopython 1.83, resulting in the following error during test `ImportError: cannot import name 'SCOPData' from 'Bio.Data' (~/.conda/envs/af2_binder…
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In trying to run the EVcouplings pipeline, I couldn't download the MMTF files needed. Then I found the following message from RCSB:
"As of July 2, 2024, RCSB PDB will no longer serve PDB data in th…
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Project seems pretty dead, but on the off chance someone else shows up, know that this script requires python2, biopython, and natsort. You should be able to handle all dependencies and get running us…
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`from Bio.Seq import UnknownSeq` is deprecated in biopython 1.81 ( https://github.com/biopython/biopython/blob/dcf52bd4546410e1a60d39fbcd4c0041ec1e6fe6/DEPRECATED.rst#biosequnknownseq) and we have the…
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As per the 4th Pydna meeting, it was generally agreed that Pydna and tools that depend on it would benefit from being able to simulate modern commercial Tm calculators offline.
I have compiled dat…
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Looks like you may need to pin BioPython or update the imports. On a new environment I installed fanc with lead to Biopython being installed with version 1.83 where GC has changed to gc_fraction (sinc…