Ecole de bioinformatique

1. La Station biologique
2. NGS basics
   [Slides 1] [Slides 2]
3. File formats
   [slides] [links]
4. Read mapping
   [slides] [handout]
5. RNA-seq statistics
6. Galaxy/cloud
7. Old gen stats for NGS

1. Galaxy server at Roscoff (Nov 2013)
2. Main Galaxy server
3. RSAT server at Roscoff
4. Main RSAT server
5. Idee-B cloud
6. Sigenae
7. Launch IGV tool [local]
8. Launch GenomeView
9. Data formats

1. Slides
2. Tutorial

1. Contents
2. Mapping & assembly
   [slides] [tutoriel]
3. Pipeline for differential expression
   • [slides]
   • [tutorial]
   • [workflow]
4. S-MART
   [slides] [handout]
5. RNA-seq de novo
   [slides] [TP slides] [TP]

1. ChIP-seq folder
2. Contents
3. Bibiliography
4. Links

Data sets

1. Descriptions
   [html] [excel]
2. Peaks for motif analysis

Talks and tutorials

1. Quality filtering and read mapping
2. Peak calling
   [slides] [tutorial]
3. Motif analysis
   [slides] [protocol] [tutorial]
4. Peak annotation
   [slides] [tutorial]
5. Integrating ChIP-seq and ChIP-exo data [slides]
6. Integrating ChIP-seq and RNA-seq [slides]

1. miRNA folder
2. Slides (EN)
3. Exercices (FR)
4. handouts

1. SNP folder
2. Filtrage des variants
   [slides] [tutorial]
3. MAPHiTS
   [slides] [tutorial]
4. Genome Annotation Toolkit
5. Annotation fonctionnelle
   [diapos] [TP]

1. CNV folder
2. SVDetect [Slides] [TP]
3. Segmentation statistics [slides]
4. Control-FREEC [Slides] [TP]

2013/01

1. Programme
2. Plaquette
3. Qui fait quoi
4. Photo de groupe
5. Previous Galaxy server at Roscoff (Jan 2013)