oushujun
Assistant Professor @ Ohio State, #Transposable elements, #LTR retrotransposon, #Plant genomics, #Population genomics
Ohio State UniversityColumbus, OH
Pinned Repositories
EDTA
Extensive de-novo TE Annotator
LTR_FINDER_parallel
A parallel wrapper for LTR_FINDER
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.
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
MTEC
A repo contains historical and updated MTEC libraries.
PopTEvo
Study of TE evolution in a population of genomes
riceTElib
A collection of manually curated TE examplars in rice (Oryza sativa).
TAIR12-TE
A repository to host scripts for annotating TEs in the Arabidopsis TAIR12 (Col-CC) genome
ThetaPi
Nucleotide diversity estimation using population SNP data
oushujun's Repositories
oushujun/EDTA
Extensive de-novo TE Annotator
oushujun/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.
oushujun/LTR_FINDER_parallel
A parallel wrapper for LTR_FINDER
oushujun/MTEC
A repo contains historical and updated MTEC libraries.
oushujun/ThetaPi
Nucleotide diversity estimation using population SNP data
oushujun/PopTEvo
Study of TE evolution in a population of genomes
oushujun/Maize_NC358
The repository for codes developed to generated the Maize NC358 assemblies and analyses.
oushujun/Maize_TE_Protocol
A repository to host scripts created for maize TE annotation protocols
oushujun/riceTElib
A collection of manually curated TE examplars in rice (Oryza sativa).
oushujun/TAIR12-TE
A repository to host scripts for annotating TEs in the Arabidopsis TAIR12 (Col-CC) genome
oushujun/PodPlot
Plot coverage or percent of total sequence as a function of minimum read length
oushujun/AnnoSINE_v2
SINE annotation tool for plant genomes
oushujun/dotPlotly
Generate an interactive dot plot from mummer or minimap alignments
oushujun/drosophila-transposons
Drosophila transposable element canonical sequences
oushujun/LTR_HARVEST_parallel
An accessory script to run LTRharvest in parallel modified by @wild-joker.
oushujun/Nchart
Creates an N-chart for comparing assembly lengths, including script for counting assembly lengths from a fasta file
oushujun/seqtk
Toolkit for processing sequences in FASTA/Q formats