transposons
There are 24 repositories under transposons topic.
cgroza/GraffiTE
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.
clemgoub/TE-Aid
Annotation helper tool for the manual curation of transposable element consensus sequences
akiomiyao/tif
Transposon Insertion Finder - Detection of new TE insertions in NGS data
clemgoub/TypeTE
Genotyping of segregating mobile elements insertions
tjiangHIT/rMETL
rMETL - realignment-based Mobile Element insertion detection Tool for Long read
akiomiyao/tef
Transposable Element Finder - Detection of active transposable elements from NGS data
rpianezza/GenomeDelta
Detecting transposable element invasions without repeat library. Detects also horizontal transfer events and endogenized viruses. All you need is a reference genome and some short reads
Linhua-Sun/Ath_Heat_Hi-C
Bioinformatic analysis of RNA-Seq, WGBS, and Hi-C in Arabidopsis
peterthorpe5/Methods_M.cerasi_R.padi_genome_assembly
Methods for genome paper
drostlab/retrocombinator
An R/C++ package for simulating the evolution of retrotransposons over time.
stajichlab/REPET-slurm
SLURM-ready bash scripts to run the complete REPET pipeline
AlexShein/transposons
Bioinformatics project
RevantOrg/Revant
De novo repeat inference from long reads
clemgoub/typeref
Bi-allelic genotyping of reference transposable elements
jlmaier12/ProActive
Detect elevations and gaps in read coverage on metagenome contigs or assembled genomes
antotartier/Claves-transcriptomicas-del-envejecimiento
This repository contains the code used in the Master's Thesis "Transcriptomic keys of aging" from the Master's Degree in Biomedicine and Molecular Oncology from the University of Oviedo
Donandrade/transposable_elements
Analysis and selection of primers for the study of transposable elements.
altingia/denovoTE-eval
Supporting repository for article "Software Evaluation for 'de novo' Detection of Transposons"
altingia/mimeo
Scan genomes for internally repeated sequences, elements which are repetitive in another species, or high-identity HGT candidate regions between species.
altingia/TE_Density_Old
Transposon Density for H4 and Camarosa
altingia/TIRmite
Map TIR-pHMM models to genomic sequences for annotation of MITES and complete DNA-Transposons.
altingia/TRACKPOSON
Pipeline to detect transposable elements (TEs) insertions polymorphism
PlantandFoodResearch/TEFingerprint
A Python3 library for transposon fingerprinting
ssi-dk/BPS_FBI_scripts_Clostyper
Tool to find mge (phages, plasmids, and transposons) in cdiff. Scripts that allow Clostyper to be run in slurm.