maxfieldk / TE-SeqView external linksLinks
Snakemake pipeline to analyze transposable element 'omics data.
☆30Jan 19, 2026Updated 3 weeks ago
Alternatives and similar repositories for TE-Seq
Users that are interested in TE-Seq are comparing it to the libraries listed below
Sorting:
- T2Tools is a toolset contains several tools for T2T assembly, and it is under development.☆15Sep 17, 2025Updated 4 months ago
- ☆16Jan 14, 2026Updated 3 weeks ago
- Improved long-read assembly by preserving contained reads☆30Aug 22, 2024Updated last year
- MCHelper: An automatic tool to curate transposable element libraries☆45Jul 3, 2025Updated 7 months ago
- Annotation helper tool for the manual curation of transposable element consensus sequences☆53Mar 5, 2025Updated 11 months ago
- A package to count reads mapping on transposable elements subfamilies, families and classes.☆12Feb 3, 2023Updated 3 years ago
- Mabs, a genome assembly tool that optimizes parameters of Hifiasm and Flye☆35Dec 24, 2025Updated last month
- Distribution of TEs and their relationship to genes in host genome☆24Jun 20, 2023Updated 2 years ago
- Long Read Based SV Calling Tools Analysis☆14Mar 22, 2024Updated last year
- Earl Grey: A fully automated TE curation and annotation pipeline☆192Jan 19, 2026Updated 3 weeks ago
- read and analyse RepeatMasker output☆27May 22, 2023Updated 2 years ago
- JTK -- a regional diploid genome assembler☆25Oct 20, 2024Updated last year
- Chromosome-level synteny plotting using orthologous regions☆31Sep 19, 2024Updated last year
- Tools for working with agp files☆19Jun 26, 2025Updated 7 months ago
- A complete telomere-to-telomere assembly of sheep: T2T-sheep1.0☆21Nov 2, 2024Updated last year
- ☆21Jan 13, 2026Updated last month
- HELIANO is a software for detection and classification of Helitron-like elements.☆32Jun 10, 2025Updated 8 months 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
- ☆15Jan 19, 2022Updated 4 years ago
- BITACORA: A Bioinformatics tool for gene family annotation☆53Dec 10, 2025Updated 2 months ago
- Phasing reads with secondary alignments☆21Nov 30, 2024Updated last year
- a tool to evaluate long-read error correction mainly with PacBio High-Fidelity Reads (HiFi reads).☆21Dec 5, 2023Updated 2 years ago
- Full-length transcriptome splicing and mutation analysis☆86Jun 24, 2024Updated last year
- PSAURON is a machine learning model for rapid assessment of protein coding gene annotation☆53Dec 11, 2025Updated 2 months ago
- Methods and recipes for Plant Genome Annotation - Transposable Elements☆20Jun 10, 2025Updated 8 months ago
- rnalib: a python-based transcriptomics library☆11Jan 23, 2026Updated 3 weeks ago
- Dynamic Elongation of a Genome Assembly Path☆25Dec 15, 2025Updated last month
- ☆24Apr 22, 2025Updated 9 months ago
- The tools are used for displaying hic signal of genome☆24Jan 4, 2021Updated 5 years ago
- ☆44Jul 23, 2025Updated 6 months ago
- Integrating long read sequencing enhances short read-based locus-specific transposable element quantification☆10May 12, 2025Updated 9 months ago
- This pipeline is used to distinguish allotetraploid subgenomes.☆11Apr 8, 2024Updated last year
- Wally: Visualization of aligned sequencing reads and contigs☆122Oct 9, 2025Updated 4 months ago
- Detecting multi-genome synteny using minimizer graph mapping☆101Updated this week
- This is a method to find telomeres and centromeres in plants.☆42Jun 17, 2023Updated 2 years ago
- Long-read Isoform Quantification and Analysis☆38Mar 25, 2025Updated 10 months ago
- Differential k-mer analysis☆40Jan 29, 2024Updated 2 years ago
- FFT cross-correlation based synteny aligner, (re)designed to make full use of parallel computing☆45Dec 21, 2021Updated 4 years ago
- An algorithm for centromere assembly using long error-prone reads☆25May 25, 2021Updated 4 years ago