bioinfocore

#! /bin/bash -l

#SBATCH -p XXXXX   # cluster-specific enter your institution partition
#SBATCH --nodes=1
#SBATCH --ntasks=16
#SBATCH --mem=60G   # memory requested, units available: K,M,G,T
#SBATCH --job-name="Z"
#SBATCH --output=atacSeqPipline_Z.log
#SBATCH --mail-user=XXXX@XXXX   # if you want an email notification after job finish
#SBATCH --mail-type=END

bioinfocore

#!/bin/sh

for num in $(seq xxxxxxx xxxxxxx)
do
    qdel $num

done

bioinfocore

#! /bin/bash -l

#SBATCH -p XXXXX   # cluster-specific enter your institution partition
#SBATCH --nodes=1   
#SBATCH --ntasks=1
#SBATCH --mem=100M   # memory requested, units available: K,M,G,T, change as needed
#SBATCH --job-name="Z"
#SBATCH --output=yourjob_Z.log    # It's always good to have a log files for each of your jobs
#SBATCH --mail-user=XXXX@XXXX   # if you want an email notification after job finish
#SBATCH --mail-type=END

bioinfocore

#!/bin/sh

while read file;
do
    fileNames="$fileNames $file"

done < sampleList.txt  # your sample list file

echo $fileNames

bioinfocore

#!/bin/sh

## Usage ./splitBed.sh input.bed

input=$1

for chr in `cut -f 1 $input | sort | uniq`;
do
	echo $chr
	grep -w $chr $input > $chr.bed