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February 9, 2022 17:30
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Convert BedGraph to bigWig
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#!/bin/bash | |
#$ -N dg2bw | |
#$ -cwd | |
#$ -q long-sl7,mem_512_12h,mem_512 | |
#$ -l virtual_free=50G,h_rt=12:00:00,disk=50G | |
#$ -o bdg2bw.out | |
#$ -pe smp 8 | |
#$ -j y | |
bdg2bw () { | |
local bdg=$1 | |
local bdgsort=${bdg%%bdg}sorted.bdg | |
local bw=${bdg%%bdg}bw | |
echo $(date): Sorting and converting $bdg | |
bedSort $bdg $bdgsort | |
bedGraphToBigWig $bdgsort $chrom $bw | |
} | |
chrom=/no_backup/asebe/genome_db/Nvec/Nvec_gDNA_concat_mito.fasta.sizes | |
bdgs=$( ls /users/asebe/aelek/proj/ATACseq_nvec_*/*/alignments/*bwa.shift.nucfree.bdg ) | |
for bdg in $bdgs; do bdg2bw "$bdg"; done |
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