Commit 1a717582 authored by Rachel  LEGENDRE's avatar Rachel LEGENDRE
Browse files

add IA results

parent bac0c0f1
......@@ -71,9 +71,9 @@ snakemake --use-singularity --singularity-args "-B '/home'" --cores $N
### Look at MultiQC report
<img src="PC_images/MACS2_narrow.png" width="700" align="center" >
<img src="PC_images/MACS2_narrow.png" width="1000" align="center" >
<img src="PC_images/MACS2_broad.png" width="700" align="center" >
<img src="PC_images/MACS2_broad.png" width="1000" align="center" >
......@@ -94,11 +94,11 @@ compute_idr:
- H3K27ac IDR results
<img src="PC_images/H3K27ac_Rep_IDR.png" width="700" align="center" >
<img src="PC_images/H3K27ac_Rep_IDR.png" width="1000" align="center" >
- Klf4 IDR results
<img src="PC_images/Klf4_Rep_IDR.png" width="700" align="center" >
<img src="PC_images/Klf4_Rep_IDR.png" width="1000" align="center" >
- Do we have reproducible peaks?
......@@ -117,7 +117,7 @@ intersectionApproach:
```
wc -l *IA.bed
wc -l 08-ReproduciblePeaks/macs2_broad/*IA.bed
```
### Look at MultiQC report
......@@ -125,12 +125,16 @@ wc -l *IA.bed
- IDR results
<img src="PC_images/IDR_metrics.png" width="700" align="center" >
<img src="PC_images/IDR_metrics.png" width="1000" align="center" >
- IA results
| Sample | Number of peaks |
|-----------|--------------------|
| H3K27ac_shCtrl | 34284 |
| H3K27ac_shUbc9 | 33803 |
| Klf4_shCtrl | 10577 |
| Klf4_shUbc9 | 24199 |
- Get the number of peaks with IA
......
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