biofast
nimpylib
Stars - the number of stars that a project has on GitHub. Growth - month over month growth in stars.
Activity is a relative number indicating how actively a project is being developed. Recent commits have higher weight than older ones.
For example, an activity of 9.0 indicates that a project is amongst the top 10% of the most actively developed projects that we are tracking.
biofast
-
Parsing huge files in Python
FYI: the python packages I mentioned earlier can all directly read gzip'd fastq files. See also this repo for examples.
-
Does Rust Support Reading in FATSA files?
needletail is rated in the Heng Li benchmark (https://github.com/lh3/biofast/)
- Why I Use Nim instead of Python for Data Processing
nimpylib
-
Why I Use Nim instead of Python for Data Processing
Another nim & python thread that has not been mentioned yet here
https://news.ycombinator.com/item?id=28506531 - project allows creating pythonic bindings for your nim libraries pretty easily, which can be useful if you still want to write most of your toplevel code in python, but leverage nim's speed when it matters.
If you want to make your nim code even more "pythonic" there is a https://github.com/Yardanico/nimpylib, and for calling some python code from nim there is a https://github.com/yglukhov/nimpy
What are some alternatives?
nimtorch - PyTorch - Python + Nim
nimpy - Nim - Python bridge
scikit-bio - scikit-bio: a community-driven Python library for bioinformatics, providing versatile data structures, algorithms and educational resources.
Primes - Prime Number Projects in C#/C++/Python
readfq - Fast multi-line FASTA/Q reader in several programming languages
PrimesResult - The results of the Dave Plummer's Primes Drag Race
boomer - Zoomer application for Linux
viroiddb - A curated database of all available viroid-like RNA sequences
nim-playground-frontend - The front-end for https://play.nim-lang.org
RecursiveFactorization.jl