CONTACT  |  SITE MAP  |  ABOUT US  |  TEAM   
Go to GnpIS Go to WheatIS Go to faidare Go to repet tool Go to RepetDB

Annotation service

You are here : Home / Home URGI / Annotation service / Repet Tools

Repet Tools

Annotation service tools


B / P / R / S / T /

Full List(6)

free acces url

S-Mart
S-MART manages your RNA-Seq and ChIP-Seq data. It also produces many different plots to visualize your data.PresentationSeveral tools are now available for mapping high-throughput sequencing data from a genome, but few can extract biological knowledge from the mapped reads. We have ...

REPET
The REPET package integrates bioinformatics programs in order to tackle biological issues at the genomic scale. It is distributed underand deposited to the Agence de Protection des Programmes (APP) under the Inter Deposit Digital Number FR 001 480007 000 R P 2008 ...

PASTEClassifier
The PASTEClassifier (Pseudo Agent System for Transposable Elements Classification) is a transposable element (TE) classifier searching for structural features and similarity to classify TEs (Hoede C. et al. 2014). It browses the whole spectrum of ...

free acces url

Tedna
Tedna is a lightweight de novo transposable element assembler. It assembles the transposable elements directly from the raw reads.Last version: 1.3
  • Source code in github
  • Changes: Long reads as input are available.
Previous versions
  • Version 1.2.2
    • Source code: ...

free acces url

BLAST
BLAST+ NCBI 2.2.29
  • Public BLAST using ViroBLAST interface.
...

free acces url

panREPET
no picture available
panREPET is described in this preprint available on BioRxiv
Project information
panREPET is a pipeline detecting shared Transposable Element (TE) insertions among a pangenome. It takes in charge multiple de novo whole-genome assemblies of the same species. It compares TE copies between each pair ...



Update: 21 Feb 2025
Creation date: 29 Jul 2024