PlantTribes is a collection of automated gene family analysis pipelines for comparative plant genomics
☆38Apr 28, 2023Updated 2 years ago
Alternatives and similar repositories for PlantTribes
Users that are interested in PlantTribes are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- showTree can visualize the phylogeny, protein sequences and protein domains of a gene family in one figure.☆31Mar 28, 2019Updated 6 years ago
- A stand-alone application for constructing websites for visualizing and browsing synteny blocks☆18Jan 11, 2021Updated 5 years ago
- R package for binmap☆12Aug 3, 2023Updated 2 years ago
- The code used in the manuscript titled "Gene duplication and evolution in recurring polyploidization-diploidization cycles in plants".☆29Mar 19, 2021Updated 5 years ago
- Gene family evolution analysis of OneKP capstone paper☆13May 10, 2021Updated 4 years ago
- HomBlocks: A multiple-alignment construction pipeline for organelle phylogenomics based on locally collinear block searching☆36Aug 7, 2017Updated 8 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
- genomic variant frequency estimation☆11Sep 7, 2025Updated 6 months ago
- scripts to parse and analyse MCScanX collinearity output☆32Mar 3, 2020Updated 6 years ago
- a tree splitting and pruning algorithm for retrieving single-copy orthologs from gene family trees☆29Feb 23, 2026Updated last month
- plot Multiple Sequence Alignment(MSA) of Clustal by python package☆14Mar 14, 2023Updated 3 years ago
- NCBI download and Orthofinder analysis☆13Jun 17, 2022Updated 3 years ago
- A tool to filter BUSCO output into single-copy gene files for phylogenomics☆13Jul 24, 2024Updated last year
- A pipeline to use Lep-Map3 to create linkage maps and LepAnchor for anchoring and orienting genome assemblies with said linkage maps.☆15Jun 24, 2025Updated 8 months ago
- MCScanX: Multiple Collinearity Scan toolkit X version. The most popular synteny analysis tool in the world!☆279Oct 4, 2025Updated 5 months ago
- This repository contains relevant code and explanation for ”Leveraging a phased pangenome to design ideal haplotypes for hybrid potato br…☆37Oct 29, 2025Updated 4 months ago
- Python package and CLI for whole-genome duplication related analyses. **This package is deprecated in favor of** https://github.com/heche…☆86Jan 6, 2026Updated 2 months ago
- A pipeline to identify gene family using mutiple tools and scripts.☆11Aug 22, 2021Updated 4 years ago
- A pipeline used to identify different modes of duplicated gene pairs☆119Jul 22, 2025Updated 8 months ago
- Creates Venn diagrams for OrthoMCL output☆17Aug 9, 2017Updated 8 years ago
- scripts and intermediate files used to annotate TEs in Jiao et al.☆34Apr 12, 2018Updated 7 years ago
- A tool to extract and visualize the results of CAFE (Computational Analysis of gene Family Evolution)☆63Sep 5, 2019Updated 6 years ago
- Bulked-Segregant Analysis using vcf file with or without parents☆32Dec 20, 2024Updated last year
- Snakemake workflow for Illumina RNA-sequencing experiments - extract population genomic signals from RNA-Seq data☆18Feb 17, 2026Updated last month
- ☆17Jul 7, 2025Updated 8 months ago
- Gene Family Annotation Workflow☆11Mar 26, 2024Updated last year
- A set of scripts to help automate the construction of data sets for multi-gene phylogenetic analyses.☆13Mar 13, 2019Updated 7 years ago
- Reconstruction of ancestral genome maps☆16Mar 29, 2018Updated 7 years ago
- Transcripts annotation and GO enrichment Fisher tests☆27Apr 28, 2023Updated 2 years ago
- MYB transcription factors are one of the largest gene family in plants and control many processes. This repository provides additional ba…☆12Feb 26, 2026Updated 3 weeks ago
- ☆27Jan 13, 2026Updated 2 months ago
- convert various features into a GFF-like file for use in genome browsers☆73Jan 27, 2026Updated last month
- The GitHub repository for the A. thaliana pan-NLR'ome project.☆18Jun 6, 2019Updated 6 years ago
- Knowledge-based Identification of Pathway Enzymes (KIPEs) performs an automatic annotation of the flavonoid biosynthesis steps in a new t…☆17Feb 12, 2026Updated last month
- ☆12Feb 16, 2025Updated last year
- source code for EVM☆122Nov 29, 2024Updated last year
- Tool set for processing fasta/fastq/table formated data. Usually they are perl scripts.☆56Mar 6, 2026Updated 2 weeks ago
- STAG: Species Tree from All Genes☆35Dec 10, 2018Updated 7 years ago
- ☆21Sep 22, 2022Updated 3 years ago