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Name: Clément Goubert
Type: User
Bio: Transposable Elements Genomics
Twitter: clementgoubert
Location: University of Arizona
Blog: www.clementgoubert.com
Name: Clément Goubert
Type: User
Bio: Transposable Elements Genomics
Twitter: clementgoubert
Location: University of Arizona
Blog: www.clementgoubert.com
[DEPRECATED] R function that blast any TE consensus to reference genome and output mapping graph
Supporting repository for article "Software Evaluation for 'de novo' Detection of Transposons"
dnaPipeTE (for de-novo assembly & annotation Pipeline for Transposable Elements), is a pipeline designed to find, annotate and quantify Transposable Elements in small samples of NGS datasets. It is very useful to quantify the proportion of TEs in newly sequenced genomes since it does not require genome assembly and works on small datasets (< 1X).
A collection of scripts to perform several downstream analyses with dnaPipeTE 1.3
A fully reproducible and state-of-the-art ancient DNA analysis pipeline
Frameshift Aware Translated Alignments
LIONS is a bioinformatic analysis pipeline which brings together a few pieces of software and some home-brewed scripts to annotate a paired-end RNAseq library to detect TE-intiated transcripts
polymorphic mobile element simulator
This tool facilitates transposable elements consensus classification
Convert RepeatMasker ".out" file into a gff3 with colors!!!
Basics GPIO projects for Raspberry Pi
So2 TE Bioinformatic ressources -- Parisot et al. 2020
Suite of scripts used for the production of Transposable Elements polymorphism (High-Throughput Transposon Display) data in 140 individuals of Aedes albopictus. Used in Goubert et al. bioRxiv: https://doi.org/10.1101/049197
Annotation helper tool for the manual curation of transposable element consensus sequences
Bi-allelic genotyping of reference transposable elements
Genotyping of segregating mobile elements insertions
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