mrmckain / PUGLinks
Testing WGD placement along a species tree using gene trees.
☆9Updated 3 weeks ago
Alternatives and similar repositories for PUG
Users that are interested in PUG are comparing it to the libraries listed below
Sorting:
- ☆30Updated 4 months ago
- wgd v2: a suite of tools to uncover and date ancient polyploidy and whole-genome duplication☆36Updated 5 months ago
- ☆22Updated 3 years ago
- Toolkit for evolutionary analyses of linkage groups☆32Updated last year
- R and Python scripts used to simulate gene trees under coalescent model and detect gene flow using triple frequency☆11Updated 2 years ago
- Materials for genome annotation sessions at the WORKSHOP ON GENOMICS, CESKY KRUMLOV☆16Updated 6 months ago
- Scripts to analyze data using TreeMix. This pipeline runs TreeMix with bootstrapping, helps choose number of migration events and creates…☆35Updated last year
- use long sequenced reads to close gaps in assemblies☆37Updated 6 years ago
- A genome assembly assessment pipeline.☆37Updated last year
- Quantifying Introgression via Branch Lengths☆53Updated 2 years ago
- Centromics: visualing centromeres with multiple omics data☆19Updated last year
- ☆40Updated 2 years ago
- SyntenyFinder contains a collection of scripts for performing and visualizing macrosynteny analyses. It supports annotated chromosome-lev…☆31Updated 6 months ago
- SCORPiOs is a synteny-guided gene tree correction pipeline for clades that have undergone a whole-genome duplication event.☆21Updated 9 months ago
- Gapless provides combined scaffolding, gap-closing and assembly correction with long reads☆35Updated 2 years ago
- G-PhoCS is a software package for inferring ancestral population sizes, population divergence times, and migration rates from individual …☆34Updated 4 years ago
- A python script for finding telomeric repeats (TTAGGG/CCCTAA) in FASTA files☆34Updated 3 years ago
- MCMCtreeR: A package to estimate distribution values for temporal node constraints and prepare input files for MCMCtree☆45Updated 5 years ago
- Hybridization detection using phylogenetic invariants☆47Updated 8 months ago
- Reconstruction of ancestral genome maps☆16Updated 7 years ago
- ☆40Updated last year
- Accompanying repository for our publications on manual curation methods for Transposable Elements.☆20Updated last year
- Genome Annotation Pipeline☆36Updated 10 months ago
- ☆21Updated 11 months ago
- A snakemake workflow for de novo genome assembly. It produces chromosome-scale primary/phased assemblies complete with organelles (mitoch…☆28Updated 2 months ago
- Detecting transposable element invasions without repeat library. Detects also horizontal transfer events and endogenized viruses. All you…☆17Updated 7 months ago
- ☆28Updated last year
- HiCAT new project☆28Updated 2 months ago
- Identification of transposable element families from pangenome polymorphisms☆51Updated last month
- Python script calculating transposable element density for all genes in a genome. Publication: https://mobilednajournal.biomedcentral.com…☆33Updated 9 months ago