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Loading FASTA files with biopython is quite sloe (~30s). Test whether we can replace the biopython load with using the [pyfaidx](https://pypi.org/project/pyfaidx/) library instead
I copied the curr…
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All the installation instructions work till I run
`pip install .`
where I get the below error
ERROR: Command errored out with exit status 1: /home/biopython/anaconda3/envs/clipper3/bin/python -u…
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Hi,
I cannot seem to run the IMGT renumbering for some TCR pdb structures.
_(base) python Example_scripts_and_sequences/ImmunoPDB.py -i 999-coot-1.pdb -o test4_999.pdb -s imgt --receptor tr
/sc…
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Traceback (most recent call last):
File "/home/zhangyanan/miniconda3/envs/gwcodeml/bin/gwidecodeml", line 33, in
sys.exit(load_entry_point('gwidecodeml==1.1', 'console_scripts', 'gwidecodeml'…
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(@hlapp : this is per the OBF Board Meeting; is there any other more general repo this can go to?)
As @peterjc has noted on the [main OBF blog](https://news.open-bio.org/2017/12/15/mailing-list-con…
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Biopython currently uses a slight variation of what was then known as the Python-style licence, a variant of the OSI approved HPND, see https://github.com/biopython/biopython/blob/master/LICENSE vs ht…
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After working on setting up the proper environment for diffdock, I thought I had a system that would allow me to roll with pytorch 2 and cuda 12. I went to run a pdb/ligand pair out of the example fol…
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We just ran the tool to upload some of our older releases to be hosted on PyPI.
This triggered a flurry of tweets from https://github.com/tell-k/pypi-updates from historic @Biopython releases, result…
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biopython/biopython#1686 is discussing reading in compressed files. pandas handles this pretty nicely (never run into issues myself), but it looks like the code infers the compression from the file ex…
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Hi, as the title descripts, can `biopython` get the gap/mismatch positions of alignment, I didn't find a function to implement it.