Ensemble of HMM methods (SEPP, TIPP, UPP)
☆95Aug 11, 2025Updated 8 months ago
Alternatives and similar repositories for sepp
Users that are interested in sepp are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- PASTA (Practical Alignment using SATe and Transitivity)☆95Jun 5, 2025Updated 10 months ago
- Graph Clustering Merger☆36Mar 25, 2024Updated 2 years ago
- WITCH is a multiple sequence alignment method that uses multiple weighted HMMs to align unaligned sequences and find consensuses.☆13Nov 18, 2025Updated 4 months ago
- Pipeline for analyzing rare mutations in metagenome-assembled genomes☆10Apr 4, 2025Updated last year
- an ensemble usage of MAFFT-linsi --add on large datasets☆13May 31, 2024Updated last year
- Managed hosting for WordPress and PHP on Cloudways • AdManaged hosting for WordPress, Magento, Laravel, or PHP apps, on multiple cloud providers. Deploy in minutes on Cloudways by DigitalOcean.
- A tool to root phylogenies☆23Sep 5, 2024Updated last year
- Accurate Species TRee ALgorithm☆277Apr 1, 2024Updated 2 years ago
- A Python library for phylogenetic scripting, simulation, data processing and manipulation.☆233Mar 31, 2026Updated 2 weeks ago
- ☆14Mar 18, 2025Updated last year
- A tool for automated alignment trimming in large-scale phylogenetic analyses. Development version: 2.0☆255Apr 9, 2026Updated last week
- RAxML Next Generation: faster, easier-to-use and more flexible☆462Apr 8, 2026Updated last week
- Guided synteny alignment between duplicated genomes (within specified quota constraint)☆59Sep 5, 2017Updated 8 years ago
- de Bruijn graph cOrrectiOn from graph aLignment☆11Jul 20, 2020Updated 5 years ago
- ☆18Dec 5, 2020Updated 5 years ago
- Managed hosting for WordPress and PHP on Cloudways • AdManaged hosting for WordPress, Magento, Laravel, or PHP apps, on multiple cloud providers. Deploy in minutes on Cloudways by DigitalOcean.
- EMIRGE reconstructs full length ribosomal genes from short read sequencing data.☆38Sep 15, 2023Updated 2 years ago
- ASTRAL for PaRalogs and Orthologs☆22Sep 13, 2022Updated 3 years ago
- Homologizer: phasing gene copies into polyploid subgenomes☆11Feb 3, 2026Updated 2 months ago
- ☆78Jun 2, 2025Updated 10 months ago
- ☆21Mar 19, 2025Updated last year
- Phylogenetic Likelihood Library 2 - experimental☆11May 12, 2025Updated 11 months ago
- FastRemap, a C++ tool for quickly remapping reads between genome assemblies based on the commonly used CrossMap tool. Link to paper: http…☆26Aug 24, 2022Updated 3 years ago
- A tool for divide-and-conquer tree estimation via a shared distance matrix☆10Mar 19, 2019Updated 7 years ago
- spruceup☆25Aug 15, 2025Updated 8 months ago
- Managed Database hosting by DigitalOcean • AdPostgreSQL, MySQL, MongoDB, Kafka, Valkey, and OpenSearch available. Automatically scale up storage and focus on building your apps.
- MetaEuk - sensitive, high-throughput gene discovery and annotation for large-scale eukaryotic metagenomics☆204Aug 25, 2025Updated 7 months ago
- ExTraMapper is a tool to find Exon and Transcript-level Mappings of a given pair of orthologous genes between two organisms using sequenc…☆11Apr 20, 2022Updated 3 years 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 3 years ago
- Align proteins to genomes with splicing and frameshift☆398Jan 5, 2026Updated 3 months ago
- An automated pipeline for retrieving orthologous DNA sequences from GenBank in R☆25Mar 20, 2026Updated 3 weeks ago
- Calculate summary statistics and manipulate multiple sequence alignments☆94Jan 28, 2026Updated 2 months ago
- Data and scripts used in the oneKP capstone analyses☆13Apr 5, 2022Updated 4 years ago
- long-read depth breaking☆11Apr 19, 2018Updated 7 years ago
- Sparse Cooccurence Network Investigation for Compositional data☆25Feb 1, 2026Updated 2 months ago
- Managed hosting for WordPress and PHP on Cloudways • AdManaged hosting for WordPress, Magento, Laravel, or PHP apps, on multiple cloud providers. Deploy in minutes on Cloudways by DigitalOcean.
- BOSTIn is a new, user-friendly phylogenetic artifact identification package.☆11Mar 28, 2026Updated 2 weeks ago
- Automated strain separation of low-complexity metagenomes☆52Nov 10, 2021Updated 4 years ago
- Efficient phylogenetic tree inference for massive taxonomic datasets☆142Apr 6, 2025Updated last year
- re-assembly and analysis of the Marine Microbial Eukaryotic Transcriptome Sequencing Project☆14Sep 18, 2018Updated 7 years ago
- JTK -- a regional diploid genome assembler☆26Oct 20, 2024Updated last year
- Recovering genes from targeted sequence capture data☆134Jan 9, 2026Updated 3 months ago
- Clann: constructing consensus trees and supertrees from multiple source trees☆18Updated this week