pyrodigal
pybase64
pyrodigal | pybase64 | |
---|---|---|
1 | 1 | |
122 | 121 | |
- | - | |
8.7 | 8.7 | |
9 days ago | 4 days ago | |
Cython | Python | |
GNU General Public License v3.0 only | BSD 2-clause "Simplified" License |
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pyrodigal
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DNA to amino acid sequence?
True! I believe bakta relies on this python implementation of prodigal for translation https://github.com/althonos/pyrodigal
pybase64
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Show HN: Python can make 3M+ WebSocket keys per second
I suspect part of the speedup is avoiding the included base64 implementation. Third party extensions[1] claim fairly large improvements.
[1] https://github.com/mayeut/pybase64
What are some alternatives?
Prodigal - Prodigal Gene Prediction Software
base64-avx512 - Code for paper "Base64 encoding and decoding at almost the speed of a memory copy"
cyvcf2 - cython + htslib == fast VCF and BCF processing
optimization-demo - :zap: Optimizing Python code by implementing a C++ extension
MultiQC - Aggregate results from bioinformatics analyses across many samples into a single report.
python-benedict - :blue_book: dict subclass with keylist/keypath support, built-in I/O operations (base64, csv, html, ini, json, pickle, plist, query-string, toml, xls, xml, yaml), s3 support and many utilities.
orfipy - Fast and flexible ORF finder
DNA-to-Protein-sequence - Translate a string containing a nucleotide sequence(DNA) into a string containing the corresponding sequence of amino acids.
DNA-to-Amino-Acid-Converter - This program breaks apart a DNA string and dispalys each amino acid associated with each codon
masurca