sequence-analysis
There are 204 repositories under sequence-analysis topic.
lh3/seqtk
Toolkit for processing sequences in FASTA/Q formats
biotite-dev/biotite
A comprehensive library for computational molecular biology
lh3/bioawk
BWK awk modified for biological data
seqan/seqan3
The modern C++ library for sequence analysis. Contains version 3 of the library and API docs.
haowenz/chromap
Fast alignment and preprocessing of chromatin profiles
lh3/readfq
Fast multi-line FASTA/Q reader in several programming languages
moshi4/pyMSAviz
MSA(Multiple Sequence Alignment) visualization python package for sequence analysis
althonos/pyhmmer
Cython bindings and Python interface to HMMER3.
TimoLassmann/kalign
A fast multiple sequence alignment program.
Superzchen/iLearnPlus
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.
yuanx749/py-cdhit
A Python package for CD-HIT, clustering protein or nucleotide sequences.
chasewnelson/SNPGenie
Program for estimating πN/πS, dN/dS, and other diversity measures from next-generation sequencing data
BioFSharp/BioFSharp
Open source bioinformatics and computational biology toolbox written in F#. This is the core package containing type models and parsers/writers.
althonos/peptides.py
Physicochemical properties, indices and descriptors for amino-acid sequences.
flexidot-bio/flexidot
Highly customizable, ambiguity-aware dotplots for visual sequence analyses
paulstothard/sequence_manipulation_suite
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.
ggonnella/gfapy
Gfapy: a flexible and extensible software library for handling sequence graphs in Python
BioJulia/BioAlignments.jl
Sequence alignment tools
nanoporetech/wub
Tools and software library developed by the ONT Applications group
althonos/lightmotif
A lightweight platform-accelerated library for biological motif scanning using position weight matrices.
lh3/htsbox
My experimental tools on top of htslib. NOT OFFICIAL!!!
nanxstats/protr
🧬 Toolkit for generating various numerical features of protein sequences
s4hts/HTStream
A high throughput sequence read toolset using a streaming approach facilitated by Linux pipes
soedinglab/spacepharer
SpacePHARER CRISPR Spacer Phage-Host pAiRs findER
Edinburgh-Genome-Foundry/Geneblocks
:diamond_shape_with_a_dot_inside: Find common blocks and differences between DNA sequences
SysBioChalmers/HGTphyloDetect
HGTphyloDetect is a versatile toolbox to identify horizontal gene transfer (HGT) events combined with phylogenetic analysis.
biocpp/biocpp-core
BioC++ core library (alphabet, meta, ranges)
evanotero/deep-music-genre-classification
🎵 Using Deep Learning to Categorize Music as Time Progresses Through Spectrogram Analysis
safaad/aim
AIM, A Framework for High-throughput Sequence Alignment using Real Processing-in-Memory Systems, Bioinformatics, btad155, https://doi.org/10.1093/bioinformatics/btad155
jessicabonnie/dandd
Tool to estimate deltas for sequence sets and answer questions about relative contribution
Townsend-Lab-Yale/cancereffectsizeR
cancereffectsizeR: Estimate somatic mutation rates and quantify selection in cancer
ylab-hi/pxblat
PxBLAT: An Efficient and Ergonomic Python Binding Library for BLAT
althonos/pymemesuite
Cython bindings and Python interface to the MEME suite, a collection of tools for the analysis of sequence motifs.
incertae-sedis/smof
Explore and analyze biological sequence data
maraab23/ggseqplot
R library for visualizing (social science) sequence data using ggplot2