Map TIR-pHMM models to genomic sequences for annotation of MITES and complete DNA-Transposons.
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Updated
Jul 6, 2021 - Python
Map TIR-pHMM models to genomic sequences for annotation of MITES and complete DNA-Transposons.
Bi-allelic genotyping of reference transposable elements
Bioinformatics project
Supporting repository for article "Software Evaluation for 'de novo' Detection of Transposons"
Pipeline to detect transposable elements (TEs) insertions polymorphism
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.
Library-free horizontal transfer detection, with a focus on transposable element invasions
Scan genomes for internally repeated sequences, elements which are repetitive in another species, or high-identity HGT candidate regions between species.
De novo repeat inference from long reads
Transposable Element Finder - Detection of active transposable elements from NGS data
Genotyping of segregating mobile elements insertions
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
A Python3 library for transposon fingerprinting
rMETL - realignment-based Mobile Element insertion detection Tool for Long read
GraffiTE is a pipeline that finds polymorphic transposable elements in genome assemblies and/or long reads, and genotypes the discovered polymorphisms in read sets using genome-graphs.
An R/C++ package for simulating the evolution of retrotransposons over time.
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