snakemake-atac-seq issues
https://git-r3lab.uni.lu/aurelien.ginolhac/snakemake-atac-seq/-/issues
2024-03-06T09:57:57+01:00
https://git-r3lab.uni.lu/aurelien.ginolhac/snakemake-atac-seq/-/issues/3
remove caching
2024-03-06T09:57:57+01:00
Aurélien Ginolhac
remove caching
Aurélien Ginolhac
Aurélien Ginolhac
https://git-r3lab.uni.lu/aurelien.ginolhac/snakemake-atac-seq/-/issues/2
add plotEnrichment
2024-03-06T09:58:38+01:00
Aurélien Ginolhac
add plotEnrichment
from BAMs by coordinate
index
run https://deeptools.readthedocs.io/en/develop/content/tools/plotEnrichment.html
```
plotEnrichment --bamfiles results/merged/NeuNposLmx1bneg_sort.bam \
results/merged/NeuNposL...
from BAMs by coordinate
index
run https://deeptools.readthedocs.io/en/develop/content/tools/plotEnrichment.html
```
plotEnrichment --bamfiles results/merged/NeuNposLmx1bneg_sort.bam \
results/merged/NeuNposLmx1bpos_sort.bam \
results/merged/NeuNpos_sort.bam \
--BED results/genrich/NeuNposLmx1bneg.narrowPeak \
results/genrich/NeuNposLmx1bpos.narrowPeak \
results/genrich/NeuNpos.narrowPeak -p 4 \
-- samFlagInclude 64 \
--minMappingQuality 30 --centerReads -o enrichment_center_q30.png
```
Aurélien Ginolhac
Aurélien Ginolhac