HyPhy standalone analyses
☆55Jan 5, 2026Updated 9 months ago
Alternatives and similar repositories for hyphy-analyses
Users that are interested in hyphy-analyses are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- Convergence analysis using relative rate and correcting for phylogenetic relatedness☆12Apr 25, 2025Updated last year
- ☆13Updated this week
- Figures for the CHM13 T2T SD paper.☆12Sep 12, 2021Updated 5 years ago
- HyPhy 2.5.x (Maintenance Mode — bug fixes only). All active development has moved to HyPhy 3: https://github.com/veg/hyphy-3☆275Oct 13, 2026Updated 2 weeks ago
- Analyzing combinations of codon substitution histories☆48Updated this week
- Deploy to Railway using AI coding agents - Free Credits Offer • AdUse Claude Code, Codex, OpenCode, and more. Autonomous software development now has the infrastructure to match with Railway.
- ☆11Nov 18, 2021Updated 4 years ago
- ☆15Jul 21, 2022Updated 4 years ago
- CAAStools is a bioinformatics toolbox that allows the user to identify and validate CAAS on MSA of orthologous proteins.☆26Nov 21, 2023Updated 2 years ago
- Tree reconstruction of ancestry using incomplete lineage sorting☆11Jan 9, 2026Updated 9 months ago
- Inferring natural selection by comparative population genomic analysis across species☆28Oct 31, 2023Updated 3 years ago
- PhyloAcc a software to detect the changes of conservation of a genomic region☆39Updated this week
- RegCloser is a genome gap-closing tool based on the robust regression approach, which is conceptually applicable to de novo assembly of N…☆16Apr 22, 2024Updated 2 years ago
- Gene-tree Reconciliation Algorithm with MUL-trees for Polyploid Analysis☆16Jul 25, 2025Updated last year
- cgat-apps repository☆38Oct 13, 2026Updated 2 weeks ago
- 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.
- Prior-Oblivious Length Estimation in Genealogies with Oriented Network☆13Jan 22, 2025Updated last year
- Analysis of convergence between organismal traits and DNA/protein sequences☆71Sep 17, 2026Updated last month
- ☆10Nov 20, 2025Updated 11 months ago
- ☆13Sep 11, 2025Updated last year
- cobraa (coalescent based reconstruction of ancient admixture): a hidden Markov model to infer ghost admixture using just a diploid sequen…☆26Jun 17, 2025Updated last year
- Some useful bioinformatics pipelines for genomics analysis☆14May 25, 2021Updated 5 years ago
- Genome wide orthology inference and dNdS estimation☆101Oct 19, 2026Updated 2 weeks ago
- The complete sequence of a Chinese individual☆14Oct 8, 2024Updated 2 years ago
- blastn2dotplots: multiple dot-plot visualizer☆29Sep 15, 2025Updated last year
- Deploy to Railway using AI coding agents - Free Credits Offer • AdUse Claude Code, Codex, OpenCode, and more. Autonomous software development now has the infrastructure to match with Railway.
- ☆68Apr 9, 2024Updated 2 years ago
- ☆13Nov 15, 2017Updated 8 years ago
- ☆83May 2, 2026Updated 6 months ago
- Estimating gene family turnover rates by likelihood-based methods☆12Aug 17, 2020Updated 6 years ago
- Identifying large scale inversions between two genomes by mapping genome 1's unique kmers onto genome 2.☆10Jun 6, 2025Updated last year
- Detecting transposable element invasions without repeat library. Detects also horizontal transfer events and endogenized viruses. All you…☆17Nov 25, 2024Updated last year
- Support material for the "Comparative Genomics Laboratory" classes of the MSc in Biodiversity and Evolution at the University of Bologna.☆21Oct 12, 2026Updated 3 weeks ago
- Methods for finding associations between phenotypic and genomic differences between species using the Forward Genomics framework☆24Mar 26, 2026Updated 7 months ago
- Code repository for the T2T-Y paper☆25Jul 11, 2023Updated 3 years ago
- Bare Metal GPUs on DigitalOcean Gradient AI • AdPurpose-built for serious AI teams training foundational models, running large-scale inference, and pushing the boundaries of what's possible.
- Consensus genome annotation using OMA☆32Jan 14, 2026Updated 9 months ago
- Gene tree - species tree reconciliation from gene tree distributions☆44Updated this week
- 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
- Process, visualize, and analyze phylogenetic trees☆13Updated this week
- Version 5 of the CAFE phylogenetics software☆183Oct 23, 2026Updated last week
- Database and pipeline for protein structure-guided annotations of ecologically relevant functions at the metagenome scale.☆34Nov 2, 2025Updated last year
- This repository provides source code for several pipelines dedicated to the alignment of nucleotide coding sequences that are based on MA…☆43Oct 22, 2026Updated last week