VIB-PSB / ksrates
ksrates is a tool to position whole-genome duplications relative to speciation events using substitution-rate-adjusted mixed paralog-ortholog Ks distributions.
☆16Updated 7 months ago
Alternatives and similar repositories for ksrates:
Users that are interested in ksrates are comparing it to the libraries listed below
- a tree splitting and pruning algorithm for retrieving single-copy orthologs from gene family trees☆25Updated last month
- wgd v2: a suite of tools to uncover and date ancient polyploidy and whole-genome duplication☆29Updated last month
- SCORPiOs is a synteny-guided gene tree correction pipeline for clades that have undergone a whole-genome duplication event.☆20Updated 4 months ago
- ASTRAL for PaRalogs and Orthologs☆21Updated 2 years ago
- This tool performs an automatic identification, annotation, and analysis of the MYB gene family in plants. It can be applied to new trans…☆17Updated 6 months ago
- Software for detecting introgression using supervised machine learning☆18Updated 2 years ago
- Robust identification of orthologous Synteny with the Orthology Index☆13Updated last month
- Script to help assessing the evolutionary history of a TE family☆15Updated 5 years ago
- ☆39Updated 2 years ago
- ☆20Updated 5 months ago
- Inferring natural selection by comparative population genomic analysis across species☆23Updated last year
- Domain based annotation of transposable elements☆19Updated this week
- TransposonPSI involves a PSI-blast search of a protein or nucleotide sequence against a set of profiles of proteins corresponding to majo…☆13Updated 4 years ago
- Bayesian gene tree reconciliation and WGD inference using amalgamated likelihood estimation☆13Updated 2 years ago
- BUSCOMP: BUSCO Compiler and Comparison tool☆21Updated 4 months ago
- Red: an intelligent, rapid, accurate tool for detecting repeats de-novo on the genomic scale.☆15Updated 9 months ago
- ☆27Updated last year
- PhyloBayes: phylogenetic reconstruction using infinite mixtures (CAT and CAT-GTR) -- serial version (for MPI, see pbmpi.git)☆14Updated 3 years ago
- SyntenyFinder contains a collection of scripts for performing and visualizing macrosynteny analyses. It supports annotated chromosome-lev…☆28Updated 2 weeks ago
- Pipeline to detect PAVs (presence/absence variations) in genome comparison using whole genome alignment.☆29Updated 6 years ago
- reference-free estimation of ploidy level from whole genome sequencing data based on de Bruijn graph☆16Updated last year
- Yet another Hi-C scaffolding tool☆18Updated 3 months ago
- A script that parses the OrthoFinder output and keeps only the orthogroups that meet specific criteria☆16Updated 4 years ago
- Python scripts to run tandem repeat finder program (Benson, 1999) and parse the results☆12Updated 5 years ago
- We developed GenomeSyn as a new tool for constructing and visualizing genome synteny, its novel design and implementation can serve as a …☆25Updated 3 years ago
- Centromics: visualing centromeres with multiple omics data☆17Updated last year
- MCMCtreeR: A package to estimate distribution values for temporal node constraints and prepare input files for MCMCtree☆45Updated 5 years ago
- Automated pipeline for running CoalHMM☆11Updated last year
- Toolkit for evolutionary analyses of linkage groups☆26Updated 6 months ago