Fast protein domain structure embedding+search tool
☆27Sep 21, 2025Updated 5 months ago
Alternatives and similar repositories for merizo_search
Users that are interested in merizo_search are comparing it to the libraries listed below
Sorting:
- ML toolset for creating TED: The Encyclopedia of Domains☆26May 29, 2025Updated 9 months ago
- Fast and accurate protein domain segmentation using Invariant Point Attention☆45May 22, 2025Updated 9 months ago
- Detection of remote homology by comparison of protein language model representations☆61Dec 16, 2024Updated last year
- ☆24Nov 14, 2025Updated 3 months ago
- Fast indexing and search of discontinuous motifs in protein structures☆124Feb 24, 2026Updated last week
- ☆47Sep 25, 2024Updated last year
- A NumPy port of the foldseek code for encoding protein structures to 3di.☆79Aug 22, 2025Updated 6 months ago
- Protein structure alignment and search algorithm☆81Updated this week
- Home of the public Martini 3 lipid parameters☆19Sep 29, 2025Updated 5 months ago
- Use AlphaFold by Deep Mind in Batch Mode + Multiprocessing☆23Aug 5, 2021Updated 4 years ago
- NEFF Calculator and MSA File Converter☆13Sep 16, 2025Updated 5 months ago
- For when you just need a coverage plot.☆11Mar 26, 2021Updated 4 years ago
- Compares pangenome graphs by calculating the segmentation distance between two GFA (Graphical Fragment Assembly) files.☆13Oct 1, 2025Updated 5 months ago
- Visualization and management of denovo transcriptomes☆10Feb 26, 2021Updated 5 years ago
- Finding patch of conserved amino acid sites in 3D structure☆13Apr 13, 2025Updated 10 months ago
- Intelligent and cost-effective bidding on cloud computing instances for bioinformatics pipelines.☆13Dec 8, 2017Updated 8 years ago
- A set a basic Python scripts to edit a multiple sequence alignment and generate a protein consensus sequence☆18Jun 9, 2022Updated 3 years ago
- Universal and efficient structure-based core gene phylogeny with Foldseek and ProstT5☆85Nov 13, 2025Updated 3 months ago
- The bioplib library☆12Jul 25, 2023Updated 2 years ago
- Hybrid Error Correction of Long Reads using Iterative Learning☆10Sep 27, 2018Updated 7 years ago
- plot Multiple Sequence Alignment(MSA) of Clustal by python package☆14Mar 14, 2023Updated 2 years ago
- Sandbox for Deep-Learning based Computational Protein Design☆120Dec 11, 2025Updated 2 months ago
- Multiple sequence alignment browser☆11Dec 12, 2022Updated 3 years ago
- CATH: high-throughput protein structure/function annotations☆12Dec 17, 2019Updated 6 years ago
- Natural Language-Based Synthetic Data Generation for Cluster Analysis.☆18Feb 23, 2025Updated last year
- Bayesian Markov Model motif discovery tool version 2 - An expectation maximization algorithm for the de novo discovery of enriched motifs…☆16Feb 1, 2021Updated 5 years ago
- High throughput tool for tall and wide multiple sequence alignment.☆26Feb 10, 2026Updated 3 weeks ago
- download isfinder database☆13Nov 9, 2018Updated 7 years ago
- Local homology search powered by ESM-2 language model, foldseek, hhsuite, and hmmer.☆17Jan 14, 2025Updated last year
- snpless-nf - A Nextflow pipeline for time-course analysis with bacterial NGS whole-genome data.☆14May 12, 2024Updated last year
- A lightweight platform-accelerated library for biological motif scanning using position weight matrices.☆62Feb 26, 2026Updated last week
- Deep Learning tool trained on protein sequence embeddings from protein language models to accurately detect remote homologues for CATH su…☆15Jun 22, 2022Updated 3 years ago
- This repository contains the AlphaCutter.py for the removal of non-globular regions from predicted protein structures.☆15Jul 25, 2023Updated 2 years ago
- Adaptive haplotype assembly for efficiently leveraging high coverage in long reads☆13Sep 4, 2018Updated 7 years ago
- CARE: a Benchmark Suite for the Classification and Retrieval of Enzymes☆41Jun 17, 2025Updated 8 months ago
- The RepeatScout 1.0.5, written by Pevzner et al., source code for browsing. The official release and more information are available at h…☆16Apr 14, 2023Updated 2 years ago
- EnzyMM - Enzyme Motif Miner - Geometric matching of catalytic motifs in protein structures.☆36Feb 19, 2026Updated 2 weeks ago
- Shared k-mer content between two genomes☆19Jun 21, 2023Updated 2 years ago
- Deep learning library for biological sequences. Extension of Fastai and Pytorch.☆39May 30, 2025Updated 9 months ago