Visualing species tree from ASTRAL with gene tree discordance
☆30May 13, 2025Updated 11 months ago
Alternatives and similar repositories for phytop
Users that are interested in phytop are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- Robust identification of orthologous Synteny with the Orthology Index☆42Apr 30, 2026Updated last week
- reference-free estimation of ploidy level from whole genome sequencing data based on de Bruijn graph☆18Jul 26, 2023Updated 2 years ago
- C-Phasing/CPhasing: Phasing and scaffolding polyploid genomes based on 3C-based data (Pore-C, CiFi, Hi-C，Omni-C).☆93Jan 25, 2026Updated 3 months ago
- Accurate Species Tree EstimatoR: a family of optimation algorithms for species tree inference (including ASTRAL & CASTER)☆243Apr 30, 2026Updated last week
- A novel genome assembly pipeline based on deep learning☆70Dec 2, 2024Updated last year
- Deploy open-source AI quickly and easily - Special Bonus Offer • AdRunpod Hub is built for open source. One-click deployment and autoscaling endpoints without provisioning your own infrastructure.
- ☆29Jul 16, 2022Updated 3 years ago
- a tree splitting and pruning algorithm for retrieving single-copy orthologs from gene family trees☆30Feb 23, 2026Updated 2 months ago
- A statistical framework for ploidy estimation using NGS short-read data☆62Apr 5, 2018Updated 8 years ago
- Infering ancestral synteny with hierarchical orthologous groups☆37Oct 17, 2025Updated 6 months ago
- ksrates is a tool to position whole-genome duplications relative to speciation events using substitution-rate-adjusted mixed paralog-orth…☆23Jan 21, 2026Updated 3 months ago
- Bayesian gene tree reconciliation and WGD inference using amalgamated likelihood estimation☆16Apr 29, 2025Updated last year
- ☆26Jan 26, 2026Updated 3 months ago
- ☆45Dec 11, 2025Updated 4 months ago
- This pipeline is used to distinguish allotetraploid subgenomes.☆11Apr 8, 2024Updated 2 years ago
- End-to-end encrypted email - Proton Mail • AdSpecial offer: 40% Off Yearly / 80% Off First Month. All Proton services are open source and independently audited for security.
- An R package for comparative transcriptomic analyses of hybrids and their progenitors☆16Sep 5, 2024Updated last year
- To phase, partition and visualize subgenomes of a neoallopolyploid or hybrid based on the subgenome-specific repetitive kmers.☆70Mar 23, 2025Updated last year
- ☆26Mar 23, 2024Updated 2 years ago
- Quantifying Introgression via Branch Lengths☆57Sep 30, 2022Updated 3 years ago
- Implementation of the TreeShrink problem☆56Apr 28, 2026Updated last week
- Clade age estimation using a Bayesian Brownian bridge model☆15Sep 3, 2025Updated 8 months ago
- ☆19Apr 24, 2022Updated 4 years ago
- Some components that speed up and reduce resource cost for original ALLHiC☆15Jun 21, 2025Updated 10 months ago
- ☆34Mar 19, 2025Updated last year
- 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.
- CATG (Collinearity-based Assembly correcTor GUI) is a tool that can correct genome assembly with collinearity and generate tour files for…☆18Jan 24, 2026Updated 3 months ago
- ☆46Sep 5, 2023Updated 2 years ago
- Telomere local assembly, Improved whole genome polish, and Plastid assembly☆22Apr 25, 2025Updated last year
- ☆22Oct 16, 2024Updated last year
- Python scripts to run tandem repeat finder program (Benson, 1999) and parse the results☆14Mar 11, 2019Updated 7 years ago
- a precise pangenome browser combining linear and graph-based pan-genome☆13Jul 16, 2024Updated last year
- Two-dimensional outlier detection algorithm for pinpointing errors in small species-specific stretches of the multiple sequence alignment…☆17May 27, 2024Updated last year
- A tool to infer species tree and phylogenetic network from multilocus data☆32Jul 2, 2020Updated 5 years ago
- Everything but the kitchen sink☆13Feb 6, 2025Updated last year
- GPU virtual machines on DigitalOcean Gradient AI • AdGet to production fast with high-performance AMD and NVIDIA GPUs you can spin up in seconds. The definition of operational simplicity.
- Organelle Genome Assembly Toolkit (Chloroplast/Mitocondrial/ITS)☆380Feb 13, 2025Updated last year
- ☆21Aug 8, 2024Updated last year
- ☆16Apr 3, 2023Updated 3 years ago
- ☆22Jan 29, 2024Updated 2 years ago
- wgd v2: a suite of tools to uncover and date ancient polyploidy and whole-genome duplication☆37Apr 12, 2026Updated 3 weeks ago
- This is a series of scripts on the rapid construction of target interval consensus sequences from bam files and the rapid construction of…☆17Jan 12, 2024Updated 2 years ago
- Code for computing various support scores for internodes☆19Apr 7, 2020Updated 6 years ago