Methods for genome paper
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Updated
Jan 10, 2018 - Shell
Methods for genome paper
SLURM-ready bash scripts to run the complete REPET pipeline
Bioinformatic analysis of RNA-Seq, WGBS, and Hi-C in Arabidopsis
Bioinformatics project
Pipeline to detect transposable elements (TEs) insertions polymorphism
A Python3 library for transposon fingerprinting
Supporting repository for article "Software Evaluation for 'de novo' Detection of Transposons"
Map TIR-pHMM models to genomic sequences for annotation of MITES and complete DNA-Transposons.
Scan genomes for internally repeated sequences, elements which are repetitive in another species, or high-identity HGT candidate regions between species.
Genotyping of segregating mobile elements insertions
An R/C++ package for simulating the evolution of retrotransposons over time.
Transposon Insertion Finder - Detection of new TE insertions in NGS data
Bi-allelic genotyping of reference transposable elements
Tool to find mge (phages, plasmids, and transposons) in cdiff. Scripts that allow Clostyper to be run in slurm.
Analysis and selection of primers for the study of transposable elements.
rMETL - realignment-based Mobile Element insertion detection Tool for Long read
De novo repeat inference from long reads
Transposable Element Finder - Detection of active transposable elements from NGS data
Library-free horizontal transfer detection, with a focus on transposable element invasions
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