HomBlocks: A multiple-alignment construction pipeline for organelle phylogenomics based on locally collinear block searching
☆36Aug 7, 2017Updated 8 years ago
Alternatives and similar repositories for HomBlocks
Users that are interested in HomBlocks are comparing it to the libraries listed below
Sorting:
- Whole organelle genome-wide alignment construction method, which ultilizes BLAST tool, to facilitate phylogeny analysis☆11May 7, 2018Updated 7 years ago
- Whole organelle genome-wide alignment construction method, which ultilizes BLAST tool, to facilitate phylogeny analysis☆15Aug 27, 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 4 years ago
- A shiny app for TBtools data plot☆29Aug 15, 2016Updated 9 years ago
- Wrapper script to concatenate, align, and construct phylogenetic trees of BUSCOs☆20Sep 18, 2019Updated 6 years ago
- A Swiss-Army-Knife for Bioinformaticians☆14Jan 27, 2026Updated last month
- PlantTribes is a collection of automated gene family analysis pipelines for comparative plant genomics☆38Apr 28, 2023Updated 2 years ago
- Pipeline for generate Ks plots of transcriptome data.☆12Dec 27, 2017Updated 8 years ago
- ☆17Jul 7, 2025Updated 7 months ago
- ☆14Mar 13, 2018Updated 7 years ago
- visualising sequence similarity with Circos☆41Jul 1, 2019Updated 6 years ago
- ☆17Nov 19, 2025Updated 3 months ago
- ☆13Oct 30, 2019Updated 6 years ago
- A pipeline for isoseq☆23Jun 8, 2018Updated 7 years ago
- 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
- Build haplotye and generate figures☆19Nov 4, 2025Updated 3 months ago
- The GitHub repository for the A. thaliana pan-NLR'ome project.☆18Jun 6, 2019Updated 6 years ago
- alignment and assembly free☆14May 29, 2023Updated 2 years ago
- A Windows Graphical Platform for Batch Manipulation of Tremendous Amount of Sequence Data☆30Apr 22, 2021Updated 4 years ago
- showTree can visualize the phylogeny, protein sequences and protein domains of a gene family in one figure.☆31Mar 28, 2019Updated 6 years ago
- Bayesian molecular clock dating tutorial with genome-scale datasets☆19Dec 4, 2021Updated 4 years ago
- Gene Family Annotation Workflow☆11Mar 26, 2024Updated last year
- MegaSSR is a robust online server that identifies Simple Sequence Repeats (SSR) and enables the design of SSR markers in high-throughput …☆11Nov 25, 2024Updated last year
- Generate pan-gene sets, given a collection of genome assemblies and corresponding gene models.☆20Feb 13, 2026Updated 2 weeks ago
- MutMap pipeline to identify causative mutations responsible for a phenotype☆65Jan 31, 2025Updated last year
- The tools are used for displaying hic signal of genome☆24Jan 4, 2021Updated 5 years ago
- A stand-alone application for constructing websites for visualizing and browsing synteny blocks☆18Jan 11, 2021Updated 5 years ago
- ksrates is a tool to position whole-genome duplications relative to speciation events using substitution-rate-adjusted mixed paralog-orth…☆21Jan 21, 2026Updated last month
- fastx-utils using klib☆20Sep 1, 2020Updated 5 years ago
- Genome annotation pipeline☆66Jun 25, 2024Updated last year
- This pipeline is used to distinguish allotetraploid subgenomes.☆11Apr 8, 2024Updated last year
- ☆11Feb 16, 2021Updated 5 years ago
- detectRuns: a R Package for Runs of Homozygosity and Runs of Heterozygosity☆12May 25, 2023Updated 2 years ago
- ☆14Oct 27, 2025Updated 4 months ago
- Python HyPhy: Facilitating HyPhy execution and parsing☆21Dec 7, 2021Updated 4 years ago
- circos pipeline☆20May 8, 2021Updated 4 years ago
- ☆21Sep 12, 2019Updated 6 years 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 last month
- Hapo-G is a tool that aims to improve the quality of genome assemblies by polishing the consensus with accurate reads.☆26Oct 24, 2025Updated 4 months ago