Commit 95060211 authored by Tommy Tang's avatar Tommy Tang
Browse files

4 threads for superEnhancer call

parent 9550d85f
......@@ -274,6 +274,7 @@ rule superEnhancer:
output: "11superEnhancer/{case}_vs_{control}-super/"
log: "00log/{case}_superEnhancer.log"
threads: 4
jobname = "{case}",
outputdir = os.path.dirname(srcdir("00log"))
idx_bt1: /scratch/genomic_med/apps/annot/indexes/bowtie/hg19
macs_g: hs
macs_pvalue: 10e-5
macs_pvalue: 1e-5
macs2_g: hs
macs2_pvalue: 10e-5
macs2_pvalue_broad: 10e-5
macs2_pvalue: 1e-5
macs2_pvalue_broad: 1e-5
#superEnhancer genome
rose_g: hg19
#number of reads downsample to
target_reads: 15000000
#number of reads downsample to, I set to 50 million, if reads number smaller than
## 50 million, downsample will keep the orignal reads
target_reads: 50000000
# Path to a JSON file with samples and their corresponding FASTQ files.
Markdown is supported
0% or .
You are about to add 0 people to the discussion. Proceed with caution.
Finish editing this message first!
Please register or to comment