Biopython
Nim
Biopython | Nim | |
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31 | 347 | |
4,171 | 16,079 | |
1.1% | 0.5% | |
9.6 | 9.9 | |
1 day ago | 3 days ago | |
Python | Nim | |
GNU General Public License v3.0 or later | GNU General Public License v3.0 or later |
Stars - the number of stars that a project has on GitHub. Growth - month over month growth in stars.
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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.
Biopython
- Invitación a proyecto - Biopython en Español
- Biopython – Python Tools for Computational Molecular Biology
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comparing the similarity between a set of protein sequences
Usearch will do all-against-all comparisons, cluster sequences, and produce alignments for each cluster. You can set the clustering threshold (proportion of residues identical). The alignments are in fasta format, which is pretty standard. If all you want is basic similarity it might be easiest to just write something that calculates normalized Hamming distances (typically called p-distances in the molecular evolution literature) between pairs of sequences. I suspect the biopython fasta reader (you can install biopython from https://biopython.org/) will be good enough.
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u/Responsible-Gas3852 comments on "Why is Cancer so Hard to Cure?"
Yes, the computing tool for biological computation.
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My boss is considering letting me take a programming course if I have some good reasons why.
Beside that their core lectures to non-computer scientists are public (survey), workshops by software carpentry move around the globe. Maybe your intent to seed hands-on knowledge is in similar tune before heading for biopython, bioperl, bioawk. It doesn't hurt to tap into resources initially written for non-labrats either, e.g. about regular expressions by programming historian.
- Can you run ScanProsite locally?
- How to iterate over the whole GRCh38 genome with python?
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Help they’re turning me into a programmer
Well, what language do you want to learn? What is your background so far? Assuming it is more on the side of biology, software carpentry's Python may eventually lead to biopython? Though there equally is a chance for AWK (Hack the planet's text! and bioawk...
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Biology related exercices and "challenges" to train by myself
I think you mind find something of a community around BioPython, which might be helpful. Just looking at the capabilities will probably be instructive as well.
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Joining the Open Source Development Course
Python is the main programming language I use nowadays. In particular numpy and pandas are of course extremely useful. I also use biopython package - a collection of software tools for biological computation written in Python by an international group of researchers and developers.
Nim
- 3 years of fulltime Rust game development, and why we're leaving Rust behind
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Top Paying Programming Technologies 2024
22. Nim - $80,000
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"14 Years of Go" by Rob Pike
I think the right answer to your question would be NimLang[0]. In reality, if you're seeking to use this in any enterprise context, you'd most likely want to select the subset of C++ that makes sense for you or just use C#.
[0]https://nim-lang.org/
- Odin Programming Language
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Ask HN: Interest in a Rust-Inspired Language Compiling to JavaScript?
I don't think it's a rust-inspired language, but since it has strong typing and compiles to javascript, did you give a look at nim [0] ?
For what it takes, I find the language very expressive without the verbosity in rust that reminds me java. And it is also very flexible.
[0] : https://nim-lang.org/
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The nim website and the downloads are insecure
I see a valid cert for https://nim-lang.org/
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Nim
FYI, on the front page, https://nim-lang.org, in large type you have this:
> Nim is a statically typed compiled systems programming language. It combines successful concepts from mature languages like Python, Ada and Modula.
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Things I've learned about building CLI tools in Python
You better off with using a compiled language.
If you interested in a language that's compiled, fast, but as easy and pleasant as Python - I'd recommend you take a look at [Nim](https://nim-lang.org).
And to prove what Nim's capable of - here's a cool repo with 100+ cli apps someone wrote in Nim: [c-blake/bu](https://github.com/c-blake/bu)
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Mojo is now available on Mac
Chapel has at least several full-time developers at Cray/HPE and (I think) the US national labs, and has had some for almost two decades. That's much more than $100k.
Chapel is also just one of many other projects broadly interested in developing new programming languages for "high performance" programming. Out of that large field, Chapel is not especially related to the specific ideas or design goals of Mojo. Much more related are things like Codon (https://exaloop.io), and the metaprogramming models in Terra (https://terralang.org), Nim (https://nim-lang.org), and Zig (https://ziglang.org).
But Chapel is great! It has a lot of good ideas, especially for distributed-memory programming, which is its historical focus. It is more related to Legion (https://legion.stanford.edu, https://regent-lang.org), parallel & distributed Fortran, ZPL, etc.
- NIR: Nim Intermediate Representation
What are some alternatives?
RDKit - The official sources for the RDKit library
zig - General-purpose programming language and toolchain for maintaining robust, optimal, and reusable software.
biotite - A comprehensive library for computational molecular biology
go - The Go programming language
bioconda-recipes - Conda recipes for the bioconda channel.
Odin - Odin Programming Language
Numba - NumPy aware dynamic Python compiler using LLVM
rust - Empowering everyone to build reliable and efficient software.
Pandas - Flexible and powerful data analysis / manipulation library for Python, providing labeled data structures similar to R data.frame objects, statistical functions, and much more
crystal - The Crystal Programming Language
PyDy - Multibody dynamics tool kit.
v - Simple, fast, safe, compiled language for developing maintainable software. Compiles itself in <1s with zero library dependencies. Supports automatic C => V translation. https://vlang.io