LQHHHHH / paml-yn00-run-pipelineView external linksLinks
A personal pipeline to calculate Ka,Ks and Ka/Ks using PAML-yn00 with YN method
☆10Feb 26, 2025Updated 11 months ago
Alternatives and similar repositories for paml-yn00-run-pipeline
Users that are interested in paml-yn00-run-pipeline are comparing it to the libraries listed below
Sorting:
- Strand and WGD aware syntenic gene identification☆15Oct 16, 2025Updated 4 months ago
- The code used in the manuscript titled "Gene duplication and evolution in recurring polyploidization-diploidization cycles in plants".☆29Mar 19, 2021Updated 4 years ago
- Dynamic Elongation of a Genome Assembly Path☆25Dec 15, 2025Updated 2 months ago
- This pipeline is used to distinguish allotetraploid subgenomes.☆11Apr 8, 2024Updated last year
- Code repository for the Global Ant Genomics Alliance☆16Jun 16, 2025Updated 8 months ago
- Phylogenetic tools for Eco-phylogenetics☆14Oct 10, 2024Updated last year
- Some useful gadgets☆11Mar 14, 2022Updated 3 years ago
- Heuristic search algorithm for fitting qpGraph models☆11Aug 4, 2022Updated 3 years ago
- A method for measuring chromosome-specific telomere length from long reads☆22May 20, 2024Updated last year
- ☆17Mar 2, 2024Updated last year
- Tree House Explorer (THEx) is a novel genome browser for exploring phylogenetic and genomic data in one succinct place.☆14Jan 29, 2024Updated 2 years ago
- Decomposition Into Single-COpy gene trees (DISCO) is a method for decomposing multi-copy gene-family trees while attempting to preserve o…☆11Jun 19, 2025Updated 7 months ago
- Algorithm For Gene Order Reconstruction in Ancestors☆80Aug 16, 2025Updated 6 months ago
- Convergent substitution detection tool based on the PCOC model☆31Dec 2, 2021Updated 4 years ago
- ggideogram is a ggplot2 extension package for drawing chromosome diagrams☆17Nov 29, 2024Updated last year
- T2Tools is a toolset contains several tools for T2T assembly, and it is under development.☆15Sep 17, 2025Updated 5 months ago
- ☆33Dec 16, 2022Updated 3 years ago
- A tool for performing collinearity-incorporating homology inference☆33Oct 7, 2023Updated 2 years ago
- Nextflow pipeline for scaffolding genome assemblies with Hi-C reads☆16Nov 5, 2025Updated 3 months ago
- Make Pseudo-Reference Genome from VCF/BCF☆14Oct 5, 2020Updated 5 years ago
- a gap-filling tools of genome in complex region.☆24Dec 30, 2025Updated last month
- Python script calculating transposable element density for all genes in a genome. Publication: https://mobilednajournal.biomedcentral.com…☆37Sep 30, 2024Updated last year
- ☆16Feb 20, 2024Updated last year
- ☆16Dec 25, 2024Updated last year
- My collection of light bioinformatics analysis pipelines for specific tasks☆79May 20, 2024Updated last year
- PoSeiDon: positive selection detection and recombination analysis pipeline☆39Sep 22, 2025Updated 4 months ago
- This is used to call Codeml to calculate the positive selection of gene in Branch-Sites Model.(Require codon sequence)☆18Nov 18, 2021Updated 4 years ago
- ☆76Apr 23, 2020Updated 5 years ago
- The repository serves as a public and official hosting of the pSONIC program (Conover et al., 2021).☆21Sep 9, 2021Updated 4 years ago
- This is the Haplotypo repository☆22May 24, 2024Updated last year
- Reduction of Althaps and Duplicate Contigs for Improved Hi-C Scaffolding☆20Mar 3, 2025Updated 11 months ago
- several scripts for bioinformatics☆24Nov 27, 2025Updated 2 months ago
- CAAStools is a bioinformatics toolbox that allows the user to identify and validate CAAS on MSA of orthologous proteins.☆23Nov 21, 2023Updated 2 years ago
- The tools are used for displaying hic signal of genome☆24Jan 4, 2021Updated 5 years ago
- scripts☆20Nov 2, 2018Updated 7 years ago
- Inferring natural selection by comparative population genomic analysis across species☆25Oct 31, 2023Updated 2 years ago
- BITACORA: A Bioinformatics tool for gene family annotation☆53Dec 10, 2025Updated 2 months ago
- Scripts for homology and orthology assessment from genomic sequences.☆19Oct 5, 2020Updated 5 years ago
- ksrates is a tool to position whole-genome duplications relative to speciation events using substitution-rate-adjusted mixed paralog-orth…☆21Jan 21, 2026Updated 3 weeks ago