Methods and recipes for Plant Genome Annotation - Transposable Elements
☆21Jun 10, 2025Updated last year
Alternatives and similar repositories for Plant_Annotation_TEs
Users that are interested in Plant_Annotation_TEs are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- Scripts that used in our chicken T2T manuscript.☆22Jan 14, 2026Updated 9 months ago
- This is a method to find telomeres and centromeres in plants.☆43Jun 17, 2023Updated 3 years ago
- Domain based annotation of transposable elements☆25Jul 21, 2026Updated 3 months ago
- read and analyse RepeatMasker output☆26May 22, 2023Updated 3 years ago
- Codes for the lettuce resequencing project in 2020☆32Jun 28, 2021Updated 5 years ago
- AI Agents on DigitalOcean Gradient AI Platform • AdBuild production-ready AI agents using customizable tools or access multiple LLMs through a single endpoint. Create custom knowledge bases or connect external data.
- Script to help assessing the evolutionary history of a TE family☆16Sep 5, 2019Updated 7 years ago
- Characterization of Structural Variation in Chinese samples☆17Dec 22, 2021Updated 4 years ago
- Tandem repeats annotation tool☆13Oct 26, 2026Updated last week
- A quick user guide for de novo transposable element (TE) library generation and TE screening. Utilising; the Extensive de novo TE Annotat…☆28Dec 7, 2022Updated 3 years ago
- An R script to generate plots for ADMIXTURE runs, for multiple K values.☆19Feb 27, 2025Updated last year
- The tools are used for displaying hic signal of genome☆25Jan 4, 2021Updated 5 years ago
- my commonly used perl script☆20Aug 28, 2020Updated 6 years ago
- B73Ab10 genome assembly methods☆17Jan 21, 2022Updated 4 years ago
- Python script calculating transposable element density for all genes in a genome. Publication: https://mobilednajournal.biomedcentral.com…☆38Oct 26, 2026Updated last week
- Deploy to Railway using AI coding agents - Free Credits Offer • AdUse Claude Code, Codex, OpenCode, and more. Autonomous software development now has the infrastructure to match with Railway.
- ☆89Oct 12, 2026Updated 3 weeks ago
- Scripts and how-tos for comparative genomics work.☆10Apr 25, 2023Updated 3 years ago
- Automated pipeline for enrichment analysis in non-model organisms !☆17Feb 8, 2026Updated 8 months ago
- ☆11Updated this week
- ☆30Mar 4, 2022Updated 4 years ago
- Nucmer from Mummer3 followed by ggplot for nicer and more customisable genome alignment plots.☆12Feb 25, 2021Updated 5 years ago
- parallelLastz: Running Lastz in parallel☆18Sep 13, 2026Updated last month
- A collection of scripts for working with Hi-C data, Juicebox, and other genomic file formats☆70May 22, 2021Updated 5 years ago
- A Forward Simulation Framework for Studying the Role of Transposable Elements in Genome Expansion and Contraction☆11Sep 29, 2026Updated last month
- Virtual machines for every use case on DigitalOcean • AdGet dependable uptime with 99.99% SLA, simple security tools, and predictable monthly pricing with DigitalOcean's virtual machines, called Droplets.
- Main scripts and commands used to analyze goat population genetic and domestication☆19Mar 25, 2019Updated 7 years ago
- The SYNY pipeline investigates synteny between species by reconstructing protein clusters from gene pairs.☆53Feb 8, 2026Updated 8 months ago
- MODAS: Multi-Omics Data Association Study toolkit☆21Nov 21, 2024Updated last year
- ☆12Jun 12, 2023Updated 3 years ago
- The pipelines were built in the project resolving the genome of a diploid potato. Most of the scripts were sepcially designed to perform …☆24Jul 4, 2023Updated 3 years ago
- Reduction of Althaps and Duplicate Contigs for Improved Downstream Analysis☆21Oct 2, 2026Updated 3 weeks ago
- Here, we sequence and de novo assemble chromosome-scale genomes of nine wild species and two cultivated accessions of tomato and construc…☆74Oct 23, 2025Updated last year
- Structure variants calling and genotyping scripts for pan-Zea☆23Nov 17, 2022Updated 3 years ago
- Inferring natural selection by comparative population genomic analysis across species☆28Oct 31, 2023Updated 3 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.
- To phase, partition and visualize subgenomes of a neoallopolyploid or hybrid based on the subgenome-specific repetitive kmers.☆77Jun 4, 2026Updated 4 months ago
- The Simple Fool's Guide to population genomics using RNA-Seq☆28Jul 8, 2016Updated 10 years ago
- ALLHiC: phasing and scaffolding polyploid genomes based on Hi-C data☆180Oct 20, 2024Updated 2 years ago
- Read, manipulate and visualize 'Pairwise mApping Format' data in R☆83Apr 30, 2021Updated 5 years ago
- SyntenyFinder contains a collection of scripts for performing and visualizing macrosynteny analyses. It supports annotated chromosome-lev…☆35Jan 15, 2025Updated last year
- PhyloForge: Unifying micro and macro evolution with comprehensive genomic signals☆10May 17, 2024Updated 2 years ago
- The codes to assemble two sorghum cultivars☆10May 11, 2024Updated 2 years ago