12 results found Sort:

sokrypton
ColabFold sokrypton
534
2.2k
mit
47
Making Protein folding accessible to all!
bioinformatics protein-structure structure-prediction multiple-sequence-alignment
Created 2021-07-19
1,354 commits to main branch, last one 7 days ago
microsoft
evodiff microsoft
87
573
mit
14
Generation of protein sequences and evolutionary alignments via discrete diffusion models
generative-model protein-sequences discrete-diffusion multiple-sequence-alignment
Created 2022-06-07
484 commits to main branch, last one 2 months ago
inab
trimal inab
45
199
gpl-3.0
12
A tool for automated alignment trimming in large-scale phylogenetic analyses. Development version: 2.0
trimming bioinformatics-tool multiple-sequence-alignment
Created 2009-09-20
534 commits to trimAl branch, last one 11 days ago
refresh-bio
FAMSA refresh-bio
26
154
gpl-3.0
7
Algorithm for ultra-scale multiple sequence alignments (3M protein sequences in 5 minutes and 24 GB of RAM)
pfam guide-tree proteomics bioinformatics sequence-similarity longest-common-subsequence multiple-sequence-alignment
Created 2016-03-22
94 commits to master branch, last one 6 months ago
moshi4
pyMSAviz moshi4
16
123
mit
4
MSA(Multiple Sequence Alignment) visualization python package for sequence analysis
msa python genomics matplotlib visualization bioinformatics sequence-analysis sequence-alignment multiple-sequence-alignment
Created 2022-11-13
63 commits to main branch, last one 4 months ago
yangao07
abPOA yangao07
18
119
mit
7
abPOA: an SIMD-based C library for fast partial order alignment using adaptive band
simd banded-dp gfa-format long-reads alignment-graph consensus-sequence consensus-sequences partial-order-alignment multiple-sequence-alignment
Created 2018-02-11
292 commits to main branch, last one 9 days ago
diegozea
MIToS.jl diegozea
17
78
other
1
A Julia package to analyze protein sequences, structures, and evolutionary information
pdb pfam sifts biology proteins coevolution conservation bioinformatics julia-language protein-evolution protein-structure mutual-information protein-sequence-analysis structural-bioinformatics multiple-sequence-alignment
Created 2015-06-18
943 commits to master branch, last one 5 months ago
gcorso
NeuroSEED gcorso
18
72
mit
1
Implementation of Neural Distance Embeddings for Biological Sequences (NeuroSEED) in PyTorch (NeurIPS 2021)
pytorch neurips-2021 bioinformatics machine-learning biological-sequences hierarchical-clustering multiple-sequence-alignment
Created 2021-04-27
19 commits to master branch, last one about a year ago
elttaes
Revisiting-PLMs elttaes
10
63
mit
1
Exploring Evolution-aware & free protein language models as protein function predictors
esm1b pytorch alphafold benchmark stability alphafold2 msa-transformer msa-construction metal-ion-binding contact-prediction fitness-prediction protein-annotation function-prediction zero-shot-prediction protein-classification protein-language-model remote-homology-detection multiple-sequence-alignment
Created 2022-10-06
33 commits to main branch, last one 6 months ago
morispi
CONSENT morispi
5
55
agpl-3.0
4
Scalable long read self-correction and assembly polishing with multiple sequence alignment
msa ngs long self reads contigs assembly consensus polishing correction long-reads self-correction multiple-sequence-alignment
Created 2018-08-09
307 commits to master branch, last one about a year ago
psipred
DMPfold2 psipred
12
51
gpl-3.0
5
Fast and accurate protein structure prediction
end-to-end deep-learning multiple-sequence-alignment protein-structure-prediction
Created 2020-09-07
101 commits to master branch, last one 2 months ago
althonos
pyfamsa althonos
3
31
gpl-3.0
5
Cython bindings and Python interface to FAMSA, an algorithm for ultra-scale multiple sequence alignments.
genomics bioinformatics cython-library python-library python-bindings sequence-alignment multiple-sequence-alignment
Created 2022-07-28
183 commits to main branch, last one 28 days ago