MrTomRod / orthofinder-toolsView external linksLinks
Tools to process OrthoFinder output: Calculate the most common gene name of an orthogroup by majority vote and create plots analogous to roary_plots
☆19Jan 14, 2026Updated 3 weeks ago
Alternatives and similar repositories for orthofinder-tools
Users that are interested in orthofinder-tools are comparing it to the libraries listed below
Sorting:
- NCBI download and Orthofinder analysis☆13Jun 17, 2022Updated 3 years ago
- BUSCO Phylogenomics | Utility script to construct species phylogenies using BUSCO proteins☆93Jan 24, 2026Updated 2 weeks ago
- Perl and Python scripts allowing to get sequence information from GenBank, RefSeq or ENA sequence repositories☆14Mar 29, 2025Updated 10 months ago
- Script to help assessing the evolutionary history of a TE family☆16Sep 5, 2019Updated 6 years ago
- Toolkit for evolutionary analyses of linkage groups☆33Jul 17, 2024Updated last year
- MYB transcription factors are one of the largest gene family in plants and control many processes. This repository provides additional ba…☆12Jul 11, 2025Updated 7 months ago
- A script that parses the OrthoFinder output and keeps only the orthogroups that meet specific criteria☆19Oct 14, 2020Updated 5 years ago
- OMAmer - tree-driven and alignment-free protein assignment to sub-families☆22Nov 21, 2025Updated 2 months ago
- Wrapper script to concatenate, align, and construct phylogenetic trees of BUSCOs☆20Sep 18, 2019Updated 6 years ago
- Extracts subgraphs or components from a graph in GFA format☆24Nov 18, 2024Updated last year
- Telomere local assembly, Improved whole genome polish, and Plastid assembly☆22Apr 25, 2025Updated 9 months ago
- Tool to estimate deltas for sequence sets and answer questions about relative contribution☆21Mar 25, 2025Updated 10 months ago
- Infering ancestral synteny with hierarchical orthologous groups☆38Oct 17, 2025Updated 3 months ago
- PanEffect is a JavaScript framework to explore variant effects across a pangenome. The tool has two views that allows a user to (1) expl…☆13Jan 30, 2024Updated 2 years ago
- Genome-Genome circle synteny☆25Dec 1, 2023Updated 2 years ago
- scripts for the project of seven thaliana genomes assembly☆42May 22, 2021Updated 4 years ago
- Species-aware DNA language models capture regulatory elements and their evolution☆27Aug 21, 2023Updated 2 years ago
- Tutorial for using MCMCTree as implemented by Brown Lab at SIUC. For divergence time estimation on UCE datasets, for dendrobatid frogs.☆10Jun 19, 2020Updated 5 years ago
- Map query sequences to the assemblies of all pre-June 2023 bacteria (https://ftp.ebi.ac.uk/pub/databases/AllTheBacteria/Releases/0.2/) on…☆12May 22, 2024Updated last year
- Homologizer: phasing gene copies into polyploid subgenomes☆11Feb 3, 2026Updated last week
- Code for TAD_SV project☆11Mar 16, 2022Updated 3 years ago
- Formats Roary output for viewing in FriPan☆11May 23, 2018Updated 7 years ago
- Programs used in the lab for various tasks☆13Mar 5, 2023Updated 2 years ago
- A list of awesome bioinformatics communities☆17Oct 3, 2024Updated last year
- Genomic Visualization Catalog☆13Oct 6, 2022Updated 3 years ago
- QuickProt: A Fast and Accurate Homology-Based Protein Annotation Tool for Non-Model Organisms to Advance Comparative Genomics☆16Jan 12, 2026Updated last month
- Creates an N-chart for comparing assembly lengths, including script for counting assembly lengths from a fasta file☆13Feb 2, 2017Updated 9 years ago
- Whole organelle genome-wide alignment construction method, which ultilizes BLAST tool, to facilitate phylogeny analysis☆15Aug 27, 2023Updated 2 years ago
- ☆12May 12, 2019Updated 6 years ago
- GerNA-Bind: Geometric-enhanced RNA-ligand Binding Specificity Prediction with Deep Learning☆25Dec 15, 2025Updated last month
- Study of TE evolution in a population of genomes☆10Dec 11, 2023Updated 2 years ago
- Gennome annotation scripts for the crickets Gryllus bimaculatus and Laupala kohalensis.☆13Feb 28, 2022Updated 3 years ago
- July 2022 NEAIR workshop: tidyverse intro for beginners☆13Jul 11, 2022Updated 3 years ago
- Portable solution to generate genome alignment chains using lastz☆60Dec 20, 2025Updated last month
- profile the repeat landscape in a genome☆16Sep 9, 2014Updated 11 years ago
- Fork of the KaKs_Calculator2.0 project https://sourceforge.net/projects/kakscalculator2☆13May 18, 2023Updated 2 years ago
- GenomeThreader gene prediction software.☆14Nov 10, 2025Updated 3 months ago
- A tool to filter BUSCO output into single-copy gene files for phylogenomics☆13Jul 24, 2024Updated last year
- The GAN model for designing AMP☆16Aug 19, 2025Updated 5 months ago