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.
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.
A Python3 library for transposon fingerprinting
Analysis and selection of primers for the study of transposable elements.
Scan genomes for internally repeated sequences, elements which are repetitive in another species, or high-identity HGT candidate regions between species.
Bi-allelic genotyping of reference transposable elements
Bioinformatics project
De novo repeat inference from long reads
SLURM-ready bash scripts to run the complete REPET pipeline
An R/C++ package for simulating the evolution of retrotransposons over time.
Methods for genome paper
Bioinformatic analysis of RNA-Seq, WGBS, and Hi-C in Arabidopsis
Library-free horizontal transfer detection, with a focus on transposable element invasions
Transposable Element Finder - Detection of active transposable elements from NGS data
rMETL - realignment-based Mobile Element insertion detection Tool for Long read
Transposon Insertion Finder - Detection of new TE insertions in NGS data
Genotyping of segregating mobile elements insertions
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