PanTE: A Comprehensive Framework for Transposable Element Discovery in Graph-based Pangenomes
☆25Jun 23, 2026Updated 2 weeks ago
Alternatives and similar repositories for Pan_TE
Users that are interested in Pan_TE are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- ☆15Feb 1, 2023Updated 3 years ago
- SINE annotation tool for plant genomes☆19Jan 21, 2024Updated 2 years ago
- a tool to evaluate long-read error correction mainly with PacBio High-Fidelity Reads (HiFi reads).☆20Dec 5, 2023Updated 2 years ago
- ☆16Nov 25, 2019Updated 6 years ago
- ☆13Sep 11, 2025Updated 9 months ago
- 1-Click AI Models by DigitalOcean Gradient • AdDeploy popular AI models on DigitalOcean Gradient GPU virtual machines with just a single click. Zero configuration with optimized deployments.
- This toolkit deals with GEnomic sequence and genome structure ANnotation files between inbreeding lines and species.☆45Mar 2, 2023Updated 3 years ago
- ☆14May 22, 2025Updated last year
- Scripts for Wang et al (2020) Evidence for widespread selection in shaping the genomic landscape during speciation of Populus.☆11Feb 15, 2020Updated 6 years ago
- plane sweep filtering genome alignments☆24May 23, 2026Updated last month
- Yet another LLM command line interface☆16Dec 9, 2024Updated last year
- A complete telomere-to-telomere assembly of sheep: T2T-sheep1.0☆21Nov 2, 2024Updated last year
- Non-parametric structural variant genotyper☆15Nov 18, 2021Updated 4 years ago
- A parallel wrapper for LTR_FINDER☆56Mar 8, 2026Updated 4 months ago
- Alignment-free genotyper for SNPs and short indels, implemented in Python.☆55Mar 7, 2025Updated last year
- Deploy on Railway without the complexity - Free Credits Offer • AdConnect your repo and Railway handles the rest with instant previews. Quickly provision container image services, databases, and storage volumes.
- Phylogenetic Analysis of Long Terminal Repeat Retrotransposons☆18Oct 4, 2022Updated 3 years ago
- RegCloser is a genome gap-closing tool based on the robust regression approach, which is conceptually applicable to de novo assembly of N…☆15Apr 22, 2024Updated 2 years ago
- zgtools: A pipeline that allows for the convenient acquisition of T2T (Telomere-to-Telomere) genomes.☆16Jun 6, 2026Updated last month
- ☆14Jul 27, 2019Updated 6 years ago
- an interactive visualization and interpretation framework of reference-projected pangenome graphs☆42Feb 15, 2025Updated last year
- Here, we sequence and de novo assemble chromosome-scale genomes of nine wild species and two cultivated accessions of tomato and construc…☆73Oct 23, 2025Updated 8 months ago
- Telomere local assembly, Improved whole genome polish, and Plastid assembly☆22Apr 25, 2025Updated last year
- Study of TE evolution in a population of genomes☆10Dec 11, 2023Updated 2 years ago
- Site frequency spectrum estimation based on window expectation-maximisation algorithm☆17May 19, 2023Updated 3 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.
- Nextflow pipeline for scaffolding genome assemblies with Hi-C reads☆16Nov 5, 2025Updated 8 months ago
- Tools for working with agp files☆19Jun 26, 2025Updated last year
- A local version of SAI, the automated stomata measuring tool☆25May 30, 2024Updated 2 years ago
- ☆15Aug 6, 2018Updated 7 years ago
- Structure variants calling and genotyping scripts for pan-Zea☆22Nov 17, 2022Updated 3 years ago
- A genome assembly assessment pipeline.☆38Jun 5, 2026Updated last month
- LDkit: a parallel computing toolkit for linkage disequilibrium analysis☆19Sep 4, 2020Updated 5 years ago
- Mutual nearest neighbor graphs for population structure inference and visualization☆18Dec 4, 2025Updated 7 months ago
- Whole Genome Annotation Pipeline☆16Jun 20, 2025Updated last year
- 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.
- Python script calculating transposable element density for all genes in a genome. Publication: https://mobilednajournal.biomedcentral.com…☆37Sep 30, 2024Updated last year
- An accurate and widely applicable pangenome graph-based variant genotyper for diploid and polyploid genomes☆48Sep 22, 2025Updated 9 months ago
- ☆15Jan 19, 2022Updated 4 years ago
- A wrapper program to parallelize and automate runs of "Structure", "fastStructure" and "MavericK".☆26May 3, 2026Updated 2 months ago
- ☆30Mar 4, 2022Updated 4 years ago
- This is a workflow that combines multiple software, mainly for whole genome annotation of eukaryotes.☆31Apr 2, 2026Updated 3 months ago
- Methylatino phasing using PacBio CCS reads☆14Dec 13, 2024Updated last year