Shujun Ou's repositories
LTR_retriever
LTR_retriever is a highly accurate and sensitive program for identification of LTR retrotransposons; The LTR Assembly Index (LAI) is also included in this package.
LTR_FINDER_parallel
A parallel wrapper for LTR_FINDER
Maize_NC358
The repository for codes developed to generated the Maize NC358 assemblies and analyses.
Maize_TE_Protocol
A repository to host scripts created for maize TE annotation protocols
AnnoSINE_v2
SINE annotation tool for plant genomes
dotPlotly
Generate an interactive dot plot from mummer or minimap alignments
drosophila-transposons
Drosophila transposable element canonical sequences
LTR_HARVEST_parallel
An accessory script to run LTRharvest in parallel modified by @wild-joker.
Nchart
Creates an N-chart for comparing assembly lengths, including script for counting assembly lengths from a fasta file