scripts and intermediate files used to annotate TEs in Jiao et al.
☆34Apr 12, 2018Updated 8 years ago
Alternatives and similar repositories for maize_v4_TE_annotation
Users that are interested in maize_v4_TE_annotation are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- ☆14Jul 27, 2019Updated 7 years ago
- TEsorter: an accurate and fast method to classify LTR-retrotransposons in plant genomes☆113Nov 17, 2025Updated 10 months ago
- Guided synteny alignment between duplicated genomes (within specified quota constraint)☆60Sep 5, 2017Updated 9 years ago
- ☆11Dec 12, 2014Updated 11 years ago
- This python script can be used to detect Whole-genome duplication (WGD) with the dS based method.☆26Feb 22, 2019Updated 7 years ago
- 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.
- Tool set for processing fasta/fastq/table formated data. Usually they are perl scripts.☆56Updated this week
- De novo lncRNA discovery pipeline, re-write of PLAR in shell and awk☆10Aug 2, 2023Updated 3 years ago
- Phylogenetic Analysis of Long Terminal Repeat Retrotransposons☆18Oct 4, 2022Updated 3 years 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
- Pipeline to detect PAVs (presence/absence variations) in genome comparison using whole genome alignment.☆31Mar 5, 2018Updated 8 years ago
- Creates Venn diagrams for OrthoMCL output☆17Aug 9, 2017Updated 9 years ago
- A pipeline used to identify different modes of duplicated gene pairs☆123Jul 22, 2025Updated last year
- Phylogenetic iDentification of Subgenomes☆10Jul 7, 2022Updated 4 years ago
- A pipeline for isoseq☆23Jun 8, 2018Updated 8 years ago
- 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.
- Easily construct the ML species tree with single-copy gene shared by different species.☆27Oct 26, 2018Updated 7 years ago
- This is the script used for analysis the population data of alfalfa☆11May 22, 2024Updated 2 years ago
- Scripts to do haplotype analysis on pan genomes.☆20Sep 24, 2020Updated 6 years ago
- ☆23Aug 8, 2024Updated 2 years ago
- calling SVs from Blasr contig level alignments☆54Mar 9, 2018Updated 8 years ago
- Genome Scripts used in fungal comparative genomics☆65Sep 25, 2020Updated 6 years ago
- De novo annotation of young retrotransposons☆46Apr 24, 2026Updated 5 months ago
- B73Ab10 genome assembly methods☆17Jan 21, 2022Updated 4 years ago
- Automates running of OrthoMCL software from http://orthomcl.org/common/downloads/software/v2.0/☆79Jul 31, 2020Updated 6 years ago
- End-to-end encrypted email - Proton Mail • AdSpecial offer: 40% Off Yearly / 80% Off First Month. All Proton services are open source and independently audited for security.
- LTR_retriever is a highly accurate and sensitive program for identification of LTR retrotransposons; The LTR Assembly Index (LAI) is also…☆220Jun 30, 2026Updated 2 months ago
- Software for detecting introgression using supervised machine learning☆21Nov 21, 2022Updated 3 years ago
- A repo contains historical and updated MTEC libraries.☆19Aug 28, 2026Updated 3 weeks ago
- Command-line program to wrap dagchainer and combine pairwise results into multi-alignments in column format☆21Oct 15, 2010Updated 15 years ago