MCMCtreeR: A package to estimate distribution values for temporal node constraints and prepare input files for MCMCtree
☆46Nov 21, 2019Updated 6 years ago
Alternatives and similar repositories for MCMCtreeR
Users that are interested in MCMCtreeR are comparing it to the libraries listed below
Sorting:
- Estimating gene family turnover rates by likelihood-based methods☆12Aug 17, 2020Updated 5 years 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
- ksrates is a tool to position whole-genome duplications relative to speciation events using substitution-rate-adjusted mixed paralog-orth…☆23Jan 21, 2026Updated 2 months ago
- STAG: Species Tree from All Genes☆35Dec 10, 2018Updated 7 years ago
- Drawing reconciled phylogenetic trees allowing 1, 2 or 3 reconcillation levels☆23Oct 24, 2025Updated 4 months ago
- An R package to perform systematic quality checks on comparative genomics analyses☆12Mar 5, 2026Updated 2 weeks ago
- Instruction and scripts for reconstructing ancestral genome from pairwise syntenic blocks using MLGO☆13Oct 30, 2018Updated 7 years ago
- ☆26Jan 26, 2026Updated last month
- ☆21Sep 12, 2019Updated 6 years ago
- a tree splitting and pruning algorithm for retrieving single-copy orthologs from gene family trees☆29Feb 23, 2026Updated 3 weeks ago
- Annotate Olfactory receptor CDS from genome☆11Apr 29, 2023Updated 2 years ago
- parallelLastz: Running Lastz in parallel☆18Sep 13, 2024Updated last year
- Genome alignment and synteny plots☆33Jun 5, 2023Updated 2 years ago
- BITACORA: A Bioinformatics tool for gene family annotation☆53Dec 10, 2025Updated 3 months ago
- From the comparison of two extant genomes and corresponding gene families, PhylDiag detects conserved segments, i.e. segments of chromoso…☆15Aug 7, 2023Updated 2 years ago
- This python script can be used to detect Whole-genome duplication (WGD) with the dS based method.☆26Feb 22, 2019Updated 7 years ago
- Accurate Species Tree EstimatoR: a family of optimation algorithms for species tree inference (including ASTRAL & CASTER)☆229Jan 4, 2026Updated 2 months ago
- issues for semina "Data Visulization"☆13Dec 23, 2025Updated 2 months ago
- SYNPHONI is a tool designed for reconstructing the dynamic evolution of syntenic relationships across all scales of phylogenetic distance…☆12May 7, 2023Updated 2 years ago
- Homologizer: phasing gene copies into polyploid subgenomes☆11Feb 3, 2026Updated last month
- STRIDE: Species Tree Root Inference from Gene Duplication Events☆11Aug 28, 2018Updated 7 years ago
- wgd v2: a suite of tools to uncover and date ancient polyploidy and whole-genome duplication☆37Feb 12, 2025Updated last year
- Newick tree processing☆13Mar 15, 2026Updated last week
- An R package to infer and analyze synteny networks from protein sequences☆36Jul 23, 2025Updated 7 months ago
- Algorithm For Gene Order Reconstruction in Ancestors☆82Aug 16, 2025Updated 7 months ago
- PhyloForge: Unifying micro and macro evolution with comprehensive genomic signals☆10May 17, 2024Updated last year
- Pipeline to detect PAVs (presence/absence variations) in genome comparison using whole genome alignment.☆29Mar 5, 2018Updated 8 years ago
- ☆10Jun 13, 2020Updated 5 years ago
- Analysis of convergence between organismal traits and DNA/protein sequences☆64Mar 13, 2026Updated last week
- Visualising discordant reads☆15Sep 2, 2015Updated 10 years ago
- Simple scripts for concatenate alignments and rename terminals for phylogenetics☆22Sep 20, 2022Updated 3 years ago
- ☆41Jun 8, 2023Updated 2 years ago
- ☆17Oct 21, 2024Updated last year
- A program for multimodel inference on speciation and trait evolution☆35Sep 4, 2017Updated 8 years ago
- De-novo Assembly Structural Variant Caller☆13Sep 15, 2016Updated 9 years ago
- ☆78Jun 2, 2025Updated 9 months ago
- Versatile tool for detecting selective sweeps with a variety of ages, strengths, starting allele frequencies, and completeness.☆15Feb 16, 2026Updated last month
- 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 9 months ago
- A collection of documented examples using TreeTime☆22Jul 30, 2019Updated 6 years ago