#

cd-hit

Here are 12 public repositories matching this topic...

refresh-bio / clusty

Clustering tool optimized for sparse distance matrices: ~16M elements with ~190M connections clustered in minutes.

clustering leiden sparse-matrices cd-hit set-cover single-linkage complete-linkage uclust

Updated Sep 12, 2026
C++

simomarsili / pcdhit

Python interface to cd-hit

python clustering cdhit cd-hit

Updated Feb 26, 2019
Python

wajidarshad / CD-Hit-parse_cluster_file

CD HIT cluster file parser

sequence-clustering sequence-alignment cd-hit

Updated Apr 11, 2018
Python

cmzmasek / repseq

Representative sequence selection for large bioinformatics datasets

machine-learning bioinformatics clustering proteins evolution computational-biology phylogenetics mmseqs iq-tree hmmer hidden-markov-models virology mafft pfam phyloxml cd-hit vaccinology universal-vaccine disease-x

Updated Jul 29, 2026
Python

ARyaskov / bioinf-binaries

Community builds for the main bioinformatics software - Samtools, Tabix, Bcftools, CD-HIT

bioinformatics samtools bcftools tabix cd-hit

Updated Mar 17, 2026

exsto1 / CLANS_append_groups_to_savefile

Creating group files from Cd-Hit output clusters and automatic importing into CLANS savefile.

python automation bioinformatics clans cd-hit

Updated Aug 28, 2020
Python

sdivye92 / cd_hit_py

Python interface to cd-hit clustering program

cd-hit protien-clustering

Updated Jul 25, 2023
Python

SahilBarbade1203 / Druggability_Research_Analysis

RnD project Collaboration

genetic-algorithm partitioning-algorithms feature-extraction drug-discovery tf-idf feature-engineering clustering-algorithm sequence-models ensemble-machine-learning cd-hit interpretable-machine-learning word2vec-embeddinngs druggability autoencoder-neural-network nlp-deep-learning majority-voting encoding-algorithms shap-analysis

Updated May 25, 2025
Jupyter Notebook

sofianatale / LB1_project

Development of a structure-driven HMM for the Kunitz domain (PF00014), combining curated 3D alignments and robust statistical evaluation. Project created during the MSc in Bioinformatics at the University of Bologna for the Laboratory of Bioinformatics 1 course.

hidden-markov-model hmmer cd-hit structural-alignments kunitz-domain

Updated Aug 25, 2025
Jupyter Notebook

Teaholicus / fungal-multidomain-cazyme-mining

Pipeline for discovering secreted multidomain fungal CAZymes using SignalP 6, DeepTMHMM, dbCAN, CD-HIT and homology-based candidate prioritization.

python bioinformatics jupyter-notebook bioinformatics-pipeline comparative-genomics fungi secretome bioinformatics-analysis hmmer genome-mining cd-hit signalp dbcan cazyme cazymes enzyme-discovery deeptmhmm

Updated Jun 25, 2026
Roff

hivlab / singularity-cdhit

CD-HIT suite singularity image

singularity-container cd-hit

Updated Jan 14, 2020

cmzmasek / phylobuild

Build a well-annotated protein phylogeny (Pfam domain architectures, taxonomy, support) from a FASTA file in one command; phyloXML for Archaeopteryx.

pipeline evolution computational-biology phylogenetics evo-devo iq-tree hmmer virology archaeopteryx mafft cd-hit archaeopteryx-js fasttree raxml-ng trimal

Updated Sep 25, 2026
Python

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