This python script can be used to detect Whole-genome duplication (WGD) with the dS based method.
☆26Feb 22, 2019Updated 7 years ago
Alternatives and similar repositories for GenoDup-Pipeline
Users that are interested in GenoDup-Pipeline are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- ☆22Sep 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 3 months ago
- Phylogenetic iDentification of Subgenomes☆10Jul 7, 2022Updated 3 years ago
- My collection of light bioinformatics analysis pipelines for specific tasks☆79May 20, 2024Updated last year
- Segmental duplication detection tool☆15Feb 7, 2023Updated 3 years ago
- Wordpress hosting with auto-scaling - Free Trial Offer • AdFully Managed hosting for WordPress and WooCommerce businesses that need reliable, auto-scalable performance. Cloudways SafeUpdates now available.
- WGDI: A user-friendly toolkit for evolutionary analyses of whole-genome duplications and ancestral karyotypes☆163Nov 4, 2025Updated 5 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
- A tool to infer species tree and phylogenetic network from multilocus data☆32Jul 2, 2020Updated 5 years ago
- Instruction and scripts for reconstructing ancestral genome from pairwise syntenic blocks using MLGO☆13Oct 30, 2018Updated 7 years ago
- Tool set for processing fasta/fastq/table formated data. Usually they are perl scripts.☆56Mar 26, 2026Updated 3 weeks ago
- Script to help assessing the evolutionary history of a TE family☆16Sep 5, 2019Updated 6 years ago
- Analysis of convergence between organismal traits and DNA/protein sequences☆65Updated this week
- Pipeline for generate Ks plots of transcriptome data.☆12Dec 27, 2017Updated 8 years ago
- An R package to detect, classify, and visualize genome rearrangements☆15Aug 4, 2020Updated 5 years ago
- Managed hosting for WordPress and PHP on Cloudways • AdManaged hosting for WordPress, Magento, Laravel, or PHP apps, on multiple cloud providers. Deploy in minutes on Cloudways by DigitalOcean.
- 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
- scripts and intermediate files used to annotate TEs in Jiao et al.☆34Apr 12, 2018Updated 8 years ago
- Pipeline to detect PAVs (presence/absence variations) in genome comparison using whole genome alignment.☆29Mar 5, 2018Updated 8 years ago
- PlantTribes is a collection of automated gene family analysis pipelines for comparative plant genomics☆38Apr 28, 2023Updated 2 years ago
- Algorithm For Gene Order Reconstruction in Ancestors☆82Aug 16, 2025Updated 8 months ago
- Neural network classification of TE☆99Apr 3, 2026Updated 2 weeks ago
- A pipeline used to identify different modes of duplicated gene pairs☆119Jul 22, 2025Updated 8 months ago
- ☆25Nov 29, 2022Updated 3 years ago
- De-novo Assembly Structural Variant Caller☆13Sep 15, 2016Updated 9 years ago
- GPU virtual machines on DigitalOcean Gradient AI • AdGet to production fast with high-performance AMD and NVIDIA GPUs you can spin up in seconds. The definition of operational simplicity.
- MCMCtreeR: A package to estimate distribution values for temporal node constraints and prepare input files for MCMCtree☆46Nov 21, 2019Updated 6 years ago
- SCORPiOs is a synteny-guided gene tree correction pipeline for clades that have undergone a whole-genome duplication event.☆24Sep 23, 2024Updated last year
- Version 5 of the CAFE phylogenetics software☆165Mar 16, 2026Updated last month
- ☆15Aug 6, 2025Updated 8 months ago
- R Package to Estimate Variable Recombination Rates using Population Genetic Data☆44Nov 13, 2019Updated 6 years ago
- ☆16Nov 25, 2019Updated 6 years ago
- ☆45Oct 29, 2022Updated 3 years ago
- ☆13Jan 20, 2026Updated 3 months 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
- Proton VPN Special Offer - Get 70% off • AdSpecial partner offer. Trusted by over 100 million users worldwide. Tested, Approved and Recommended by Experts.
- read and analyse RepeatMasker output☆27May 22, 2023Updated 2 years ago
- De novo annotation of young retrotransposons☆47Apr 12, 2022Updated 4 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
- A JBrowse 1 plugin to view multiple alignment format (MAF) files☆27Oct 25, 2023Updated 2 years ago
- A pipeline to de novo assemble the stLFR reads using Supernova Assembler☆20Feb 22, 2023Updated 3 years ago
- ☆41Jun 8, 2023Updated 2 years ago
- microRNA PREdiction From small RNA-seq data☆32Dec 28, 2017Updated 8 years ago