README.md

# PHINDaccess FUNOMICs


## Material for practicals

Biological material & question: 


**Datasets used for practical:** 

Giulia Manina
Melanie Hamon


## Data




**Annotation  Hands-On:**

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**ATAC-seq Hands-On:**

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## Hands-on programme

| Course    | training        | 
|-----------|--------------------|
| Functional annotation: Annotation basics | [Hands-on](Monday/Annotation_basics.Rmd)  |
| Functional annotation: Annotation advanced | [Hands-on](Monday/Annotation_advanced.md)  |
| Integration: Functional integration  | [Hands-on](Tuesday/Functional integration.Rmd)  |
| Functional analysis: ORA and GSEA | [Hands-on](Tuesday/ORA_and_GSEA.Rmd)  |
| Functional analysis: GREAT | [Hands-on](Tuesday/GREAT.md)  |
| ATACseq: analysis | [Hands-on](Wednesday/ATACflow.md)  |
| ChIPseq: Differential binding | [Hands-on](Thursday/chipflowR.md)  |
| ChIPseq: Peak annotation | [Hands-on](Thursday/peak_annotation.Rmd )  |
| ChIPseq: Motif finding | [Hands-on](Thursday/MEME.md)  |



## Friday session : questions 
Feel free to add your questions here :
https://docs.google.com/document/d/1MjZz2wyQqiZbSD386N6xOYZvPDgibRvBerXzbgKRJp8/edit?usp=sharing


## Trainers 

- Natalia Pietrosemoli: <natalia.pietrosemoli@pasteur.fr> 
- Claudia Chica: <claudia.chica@pasteur.fr>