Projects in Awesome Lists tagged with multiple-sequence-alignment
A curated list of projects in awesome lists tagged with multiple-sequence-alignment .
https://github.com/sokrypton/colabfold
Making Protein folding accessible to all!
bioinformatics multiple-sequence-alignment protein-structure structure-prediction
Last synced: 13 May 2025
https://github.com/sokrypton/ColabFold
Making Protein folding accessible to all!
bioinformatics multiple-sequence-alignment protein-structure structure-prediction
Last synced: 27 Mar 2025
https://github.com/microsoft/evodiff
Generation of protein sequences and evolutionary alignments via discrete diffusion models
discrete-diffusion generative-model multiple-sequence-alignment protein-sequences
Last synced: 14 May 2025
https://github.com/inab/trimal
A tool for automated alignment trimming in large-scale phylogenetic analyses. Development version: 2.0
bioinformatics-tool multiple-sequence-alignment trimming
Last synced: 11 Dec 2025
https://github.com/moshi4/pymsaviz
MSA(Multiple Sequence Alignment) visualization python package for sequence analysis
bioinformatics genomics matplotlib msa multiple-sequence-alignment python sequence-alignment sequence-analysis visualization
Last synced: 07 May 2025
https://github.com/diegozea/mitos.jl
A Julia package to analyze protein sequences, structures, and evolutionary information
bioinformatics biology coevolution conservation julia-language multiple-sequence-alignment mutual-information pdb pfam protein-evolution protein-sequence-analysis protein-structure proteins sifts structural-bioinformatics
Last synced: 05 Apr 2025
https://github.com/gcorso/neuroseed
Implementation of Neural Distance Embeddings for Biological Sequences (NeuroSEED) in PyTorch (NeurIPS 2021)
bioinformatics biological-sequences hierarchical-clustering machine-learning multiple-sequence-alignment neurips-2021 pytorch
Last synced: 07 May 2025
https://github.com/jasperlinthorst/reveal
Graph based multi genome aligner
alignment assembly genome gfa graph multiple-sequence-alignment reveal
Last synced: 15 Jul 2025
https://github.com/yangao07/tidehunter
TideHunter: efficient and sensitive tandem repeat detection from noisy long reads using seed-and-chain
long-reads multiple-sequence-alignment partial-order-alignment seed-and-chain tandem-repeats
Last synced: 24 Dec 2025
https://github.com/althonos/pyfamsa
Cython bindings and Python interface to FAMSA, an algorithm for ultra-scale multiple sequence alignments.
bioinformatics cython-library genomics multiple-sequence-alignment python-bindings python-library sequence-alignment
Last synced: 09 Apr 2025
https://github.com/sanderlab/alignmentviewer
Multiple sequence alignment visualizer
alignment html javascript js msa multiple-sequence-alignment protein sequence-alignment
Last synced: 23 Sep 2025
https://github.com/jaswindersingh2/SPOT-RNA2
Improved RNA Secondary Secondary Structure Prediction using Evolutionary Profile, Mutational Coupling and Two-dimensional Transfer Learning
base-triples canonical-base-pairs deep-learning direct-coupling-analysis evolutionary-information homologous-sequence lone-pairs multiple-sequence-alignment non-canonical-base-pairs pseudoknot-base-pairs rna-secondary-structure spot-rna2 transfer-learning
Last synced: 21 Jul 2025
https://github.com/althonos/pymuscle5
Cython bindings and Python interface to MUSCLE v5, a highly efficient and accurate multiple sequence alignment software.
bioinformatics cython-library genomics multiple-sequence-alignment muscle python-bindings python-library sequence-alignment
Last synced: 24 Oct 2025
https://github.com/nanoporetech/pyspoa
Python bindings to spoa
alignment multiple-sequence-alignment nanopore poa
Last synced: 13 Apr 2025
https://github.com/althonos/pytrimal
Cython bindings and Python interface to trimAl, a tool for automated alignment trimming. Now with SIMD!
alignment-trimming bioinformatics cython-wrapper genomics multiple-sequence-alignment python python-interface python-library simd
Last synced: 23 Jun 2025
https://github.com/benhid/sequoya
Solving Multiple Sequence Alignment (MSA) problems with multi-objective metaheuristics
metaheuristics msa multiple-sequence-alignment optimization python sequence-alignments
Last synced: 27 Jul 2025
https://github.com/lkremer/msa_trimmer
Straightforward & minimalistic removal of poorly aligned regions in sequence alignments.
aligned-regions alignment-trimming cds-alignment codeml codon-alignment molecular-evolution msa-trimmer multiple-sequence-alignment paml phylogenetics sequence-alignment trimmer trimming
Last synced: 06 Jul 2025
https://github.com/orangesi/pymsaploter
plot Multiple Sequence Alignment(MSA) of Clustal by python package
multiple-sequence-alignment python3 svg visualization
Last synced: 01 May 2025
https://github.com/andreaguarracino/wfpoa
An extension to the wavefront algorithm that generalizes it to work on directed acyclic sequence graphs
alignment consensus-sequences msa multiple-sequence-alignment partial-order-alignment wavefront wfa
Last synced: 17 Jul 2025
https://github.com/kullrich/msa2dist
MSA2dist calculates pairwise distances between all sequences of a DNAStringSet or a AAStringSet using a custom score matrix and conducts codon based analysis
bioconductor-package bioinformatics dnds dnds-estimation iupac kaks msa2dist multiple-sequence-alignment r score-matrix
Last synced: 16 Jun 2025
