Version 5 of the CAFE phylogenetics software
☆183Oct 23, 2026Updated last week
Alternatives and similar repositories for CAFE5
Users that are interested in CAFE5 are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- Analyze changes in gene family size and provide a statistical foundation for evolutionary inferences.☆127Apr 7, 2021Updated 5 years ago
- A tool to extract and visualize the results of CAFE (Computational Analysis of gene Family Evolution)☆65Sep 5, 2019Updated 7 years ago
- A tool for plotting CAFE5 gene family expansion/contraction result☆38Sep 22, 2023Updated 3 years ago
- Synteny and Rearrangement Identifier☆496Jul 1, 2026Updated 3 months ago
- Identify and find telomeres, or telomeric repeats in a genome.☆180Oct 23, 2026Updated last week
- Wordpress hosting with auto-scaling - Free Trial Offer • AdFully Managed hosting for WordPress and WooCommerce businesses that need reliable, auto-scalable performance. Cloudways SafeUpdates now available.
- BRAKER is a pipeline for fully automated prediction of protein coding gene structures with GeneMark-ES/ET/EP/ETP and AUGUSTUS in novel eu…☆469Jun 17, 2026Updated 4 months ago
- Accurate Species Tree EstimatoR: a family of optimation algorithms for species tree inference (including ASTRAL & CASTER)☆262Jun 25, 2026Updated 4 months ago
- LTR_retriever is a highly accurate and sensitive program for identification of LTR retrotransposons; The LTR Assembly Index (LAI) is also…☆220Jun 30, 2026Updated 4 months ago
- A pipeline used to identify different modes of duplicated gene pairs☆127Jul 22, 2025Updated last year
- source code for EVM☆130Sep 22, 2026Updated last month
- A genome completeness evaluation tool based on miniprot☆270Oct 7, 2026Updated 3 weeks ago
- This is the standalone version of the EviAnn pipeline☆187Oct 7, 2026Updated 3 weeks ago
- A program for assessing the T2T genome continuity and completeness☆98Oct 13, 2026Updated 2 weeks ago
- Align proteins to genomes with splicing and frameshift☆425Jan 5, 2026Updated 9 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.
- LTR_Finder is an efficient program for finding full-length LTR retrotranspsons in genome sequences.☆51Jan 16, 2024Updated 2 years ago
- Tool to plot synteny and structural rearrangements between genomes☆359Jul 27, 2026Updated 3 months ago
- haplotypic duplication identification tool☆298Oct 30, 2025Updated last year
- PAML is a package of programs for phylogenetic analyses of DNA or protein sequences using maximum likelihood. Please report only **techni…☆209Jan 29, 2026Updated 9 months ago
- Phylogenetic orthology inference for comparative genomics☆196Oct 23, 2026Updated last week
- Python library to facilitate genome assembly, annotation, and comparative genomics☆933Sep 19, 2026Updated last month
- GALBA is a pipeline for fully automated prediction of protein coding gene structures with AUGUSTUS in novel eukaryotic genomes for the sc…☆150Apr 13, 2026Updated 6 months ago
- BITACORA: A Bioinformatics tool for gene family annotation☆58Dec 10, 2025Updated 10 months ago
- WGDI: A user-friendly toolkit for evolutionary analyses of whole-genome duplications and ancestral karyotypes☆176Nov 4, 2025Updated 11 months ago
- Deploy on Railway without the complexity - Free Credits Offer • AdConnect your repo and Railway handles the rest with instant previews. Quickly provision container image services, databases, and storage volumes.
- Phylogenetic orthology inference for comparative genomics☆877Jul 15, 2025Updated last year
- HapHiC: a fast, reference-independent, allele-aware scaffolding tool based on Hi-C data☆288Aug 10, 2026Updated 2 months ago
- MCScanX: Multiple Collinearity Scan toolkit X version. The most popular synteny analysis tool in the world!☆302Oct 4, 2025Updated last year
- Another Gtf/Gff Analysis Toolkit https://nbisweden.github.io/AGAT/☆589Sep 7, 2026Updated last month
- Neural network classification of TE☆104Apr 3, 2026Updated 6 months ago
- Yet another Hi-C scaffolding tool☆185Nov 4, 2024Updated last year
- TOGA (Tool to infer Orthologs from Genome Alignments): implements a novel paradigm to infer orthologous genes. TOGA integrates gene annot…☆212Nov 23, 2025Updated 11 months ago
- Inference of ploidy and heterozygosity structure using whole genome sequencing data☆305Sep 23, 2026Updated last month
- An accurate GFF3/GTF lift over pipeline☆562Aug 1, 2023Updated 3 years ago
- Virtual machines for every use case on DigitalOcean • AdGet dependable uptime with 99.99% SLA, simple security tools, and predictable monthly pricing with DigitalOcean's virtual machines, called Droplets.
- FastOMA is a scalable software package to infer orthology relationship.☆104Updated this week
- Telomere local assembly, Improved whole genome polish, and Plastid assembly☆22Apr 25, 2025Updated last year
- Hifiasm: a haplotype-resolved assembler for accurate Hifi reads☆818May 31, 2026Updated 5 months ago
- A telomere-to-telomere toolkit for gap-free genome assembly and centromeric repeat identification☆191Jun 23, 2026Updated 4 months ago
- Evaluating genome assemblies☆128Oct 21, 2026Updated last week
- De-Novo Repeat Discovery Tool☆248Updated this week
- ☆42May 19, 2025Updated last year