Useful tools
In this section you will find the links to several tutorials and links to commonly used tools in bioinformatics.
For now the topics available are IGV, phylogeny, conserved motifs research, GO term analysis, statistics. If there are topics you would like us to add, send us an email.
Online analysis of RNAseq data
If you have a count table of your genes, normally obtained after the bioinformatical analysis of your RNAseq data, you can do differential gene expression analysis, GO (gene ontology) analysis and also pathway analysis directly and easily online using the iDEP website.
How to format your Excel file
There are some rules on how to lay out your data in an excel file so that we can launch bioinformatics analyses without having to modify it, here is a useful link to know what to do.
Créer des Diagrammes de Venn en ligne
https://asntech.shinyapps.io/intervene/
https://degradome.uniovi.es/cgi-bin/nVenn/nvenn.cgi
https://jvenn.toulouse.inrae.fr/app/example.html
http://www.interactivenn.net/
How to deposit data on the GEO archive
Here is a short tutorial to show you the steps to follow to deposit your data to the GEO database.
Genome viewer
Link to the online manual
Link to official videos 5 minutes per topic
Phylogeny
Online phylogenetic analysis in one click starting from a set of fasta sequences.
Tool for sequence analysis
This tool permits to work with sequences you already have, or to get sequences from GenBank, to align them, do phylogenies, and a lot more. The tutorial/walk through section is very complete and helpful with lots of videos.
Motif research
This online tool is very intuitive. It helps you find motives starting from a sequence file.
Link to MEME and a short video to learn how to do the analysis.
GO term analysis
David is an online tool for GO term analysis starting from a list of genes.
Link to David and a video to learn how to do this kind of analysis (12min)
WEGO is an online tool that does the well known GO term histograms. To use it you need a file with the list of your genes and their respective GO terms. Link to WEGO
Statistics
Here are two short videos that will help you answer the eternal question : what statistical test should I use to analyse my dataset ?
To start (10min) and to go on (10min)