sequence-analysis

Toolkit for processing sequences in FASTA/Q formats

A comprehensive library for computational molecular biology

BWK awk modified for biological data

The modern C++ library for sequence analysis. Contains version 3 of the library and API docs.

Fast alignment and preprocessing of chromatin profiles

Fast multi-line FASTA/Q reader in several programming languages

A fast multiple sequence alignment program.

Cython bindings and Python interface to HMMER3.

MSA(Multiple Sequence Alignment) visualization python package for sequence analysis

A Python package for CD-HIT, clustering protein or nucleotide sequences.

Open source bioinformatics and computational biology toolbox written in F#. This is the core package containing type models and parsers/writers.

Program for estimating πN/πS, dN/dS, and other diversity measures from next-generation sequencing data

iLearnPlus is the first machine-learning platform with both graphical- and web-based user interface that enables the construction of automated machine-learning pipelines for computational analysis and predictions using nucleic acid and protein sequences.

Highly customizable, ambiguity-aware dotplots for visual sequence analyses

Physicochemical properties, indices and descriptors for amino-acid sequences.

A collection of simple JavaScript programs for generating, formatting, and analyzing short DNA and protein sequences. The Sequence Manipulation Suite is commonly used by molecular biologists, for teaching purposes, and for program and algorithm testing.

Gfapy: a flexible and extensible software library for handling sequence graphs in Python

Sequence alignment tools

Tools and software library developed by the ONT Applications group