Biopython
CPython
Biopython | CPython | |
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31 | 1,314 | |
4,171 | 59,658 | |
1.1% | 1.0% | |
9.6 | 10.0 | |
1 day ago | 3 days ago | |
Python | Python | |
GNU General Public License v3.0 or later | GNU General Public License v3.0 or later |
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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.
CPython
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scrape-yahoo-finance
Web Scraping Tool Development: Develop a Python based web scraping tool capable of extracting data from targeted web pages on Yahoo Finance and presenting the data extracted in a readable format. Our target site relies on AJAX to load and update the data dynamically so we will need a tool that is capable of processing JavaScript.
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Employee Management System using Python.
Dealing with piles of papers or scattered Excel sheets for employee information can be a real headache, right? Well, what if I told you there's a smoother way to handle all that? A system that lets you easily store, update, and find details about your employees in just a few clicks. Sounds neat, doesn't it? In this article, we're going to explore creating an employee management system using Python, Tkinter, and SQLite3.
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Build a Product Receipt Generator using Python.
Python is a versatile tool, and today we're delving into a practical use case that can simplify your daily routines. With the datetime module at your disposal, handling dates and times becomes a breeze, making it perfect for crafting accurate and dynamic product receipts. Whether you're a seasoned Python pro or just starting your coding journey, this article will guide you through each step with ease.
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Build a Music Player with Python
When working in Visual Studio Code (VS Code), create a new Python file for our music player project. It's helpful to have separate files for different parts of your project.
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PEP 744 – JIT Compilation
> It provides a meaningful performance improvement for at least one popular platform (realistically, on the order of 5%).
At first it will not provide a large boost, but it will set the foundations for larger gains in subsequent releases. They link a list of some proposed improvements already underway, with improvement estimates, at https://github.com/python/cpython/issues/115802
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Featured Mod of the Month: Phil Ashby
After that, with the basics of software engineering understood, I would move on to a wider use language, with a bigger ecosystem to employ, most likely Python. This would expose me to large system design / distributed systems and architectural challenges...
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Convert Images Into Pencil Sketch
Have you ever felt like your photos needed a little extra touch to stand out? Well, get ready because we're about to learn a cool Python trick! We're going to take ordinary photos and turn them into awesome pencil sketches using Python and OpenCV. This will make your pictures look like they were drawn by hand!
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Crafting an Image to PDF Converter App Using Python
Have you ever found yourself in a situation where you needed to convert a bunch of images into a PDF file quickly and efficiently? Imagine the convenience of converting a series of images from your recent trip into a single PDF album with just a few clicks. In this article, we will cover the process of building an Image PDF Converter App using Python. With the help of libraries like tkinter, os, and Python Imaging Library (PIL), we'll walk through the process of creating a powerful tool that can streamline this task for you.
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Calculator with GUI Using Python Tkinter
If you've ever wanted to learn how to use Python or if you already know a bit and want to try something new, then you're in the right place! In this article, we'll show you step-by-step how to make your very own calculator using Python's Tkinter library, a renowned Python library for creating graphical user interfaces. Tkinter stands out for its simplicity, versatility, and widespread use in the Python community. It doesn't matter if you're a total beginner or an experienced coder looking for a fun project, we'll guide you through everything you need to know.
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Back to Basics - Pandas #1
Pandas is an open source, BSD-licensed library providing high-performance, easy-to-use data structures and data analysis tools for the Python programming language.
What are some alternatives?
RDKit - The official sources for the RDKit library
RustPython - A Python Interpreter written in Rust
biotite - A comprehensive library for computational molecular biology
ipython - Official repository for IPython itself. Other repos in the IPython organization contain things like the website, documentation builds, etc.
bioconda-recipes - Conda recipes for the bioconda channel.
Vulpix - Fast, unopinionated, minimalist web framework for .NET core inspired by express.js
Numba - NumPy aware dynamic Python compiler using LLVM
Visual Studio Code - Visual Studio Code
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
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PyDy - Multibody dynamics tool kit.