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The Biopython project is an open-source collection of non-commercial Python tools for computational biology and bioinformatics, created by an international association of developers. [ 1 ] [ 4 ] [ 5 ] It contains classes to represent biological sequences and sequence annotations , and it is able to read and write to a variety of file formats.
Open Bioinformatics Foundation: Biopython: Python language toolkit Cross-platform: Biopython [2] Open Bioinformatics Foundation: BioRuby: Ruby language toolkit Linux, macOS, Windows [3] GPL v2 or Ruby: Open Bioinformatics Foundation: BLAST: Algorithm and program for comparing primary biological sequence information, including DNA and protein ...
Rosalind is an educational resource and web project for learning bioinformatics through problem solving and computer programming. [1] [2] [3] Rosalind users learn bioinformatics concepts through a problem tree that builds up biological, algorithmic, and programming knowledge concurrently or learn by topics, with the topic of Alignment, Combinatorics, Computational Mass Spectrometry, Heredity ...
The Perl Cookbook is written by Tom Christiansen and Nathan Torkington, and published by O'Reilly. The Perl Cookbook inspired the PLEAC (Programming Language Examples Alike Cookbook) website, which translated the code snippets in the Perl Cookbook into other languages: Python, Ruby, Guile, Tcl, Java, and beyond. O'Reilly went on to publish ...
Clustering is central to much data-driven bioinformatics research and serves as a powerful computational method whereby means of hierarchical, centroid-based, distribution-based, density-based, and self-organizing maps classification, has long been studied and used in classical machine learning settings.
Statistical Coupling Analysis (SCA) is a method used in bioinformatics to study how pairs of amino acids in a protein sequence evolve together. It analyzes a multiple sequence alignment (MSA), which is a display of the sequences of many related proteins arranged to highlight similarities and differences. SCA measures how much the amino acid ...
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He contributed the chapter on algorithms to the Python Cookbook. [12] From 2001 to 2014 he was active as a member of the Python Software Foundation's board of directors. Peters was an influential contributor to Python mailing lists. [13] He is also a highly ranked contributor to Stack Overflow, mostly for answers relating to Python. [14] [10]