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GAT_HepG2_WL.sh
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GAT_HepG2_WL.sh
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#!/bin/sh
#SBATCH --partition general
#SBATCH --mem 64GB
#SBATCH --job-name GAT_HeG2_WL
#SBATCH --output /scratchb/sblab/spiege01/ENCODE_more_celllines/HepG2/GAT_shuffling/Logs/GAT_HEK_WL.%j.log
~/python/bin/gat-run.py \
--segments=/scratchb/sblab/spiege01/ENCODE_more_celllines/HepG2/G4-ChIP/SLX-19356/analysis/confidence_peaks/HepG2_async_rep1-3.mult.6of9.bed \
--annotations=/scratchb/sblab/spiege01/ENCODE_more_celllines/HepG2/Cut_bedfiles/ENCFF002CDZ.cut.bed.gz \
--annotations=/scratchb/sblab/spiege01/ENCODE_more_celllines/HepG2/Cut_bedfiles/ENCFF002CKQ.cut.bed.gz \
--annotations=/scratchb/sblab/spiege01/ENCODE_more_celllines/HepG2/Cut_bedfiles/ENCFF002CKR.cut.bed.gz \
--annotations=/scratchb/sblab/spiege01/ENCODE_more_celllines/HepG2/Cut_bedfiles/ENCFF002CKS.cut.bed.gz \
--annotations=/scratchb/sblab/spiege01/ENCODE_more_celllines/HepG2/Cut_bedfiles/ENCFF002CLC.cut.bed.gz \
--annotations=/scratchb/sblab/spiege01/ENCODE_more_celllines/HepG2/Cut_bedfiles/ENCFF002CLD.cut.bed.gz \
--annotations=/scratchb/sblab/spiege01/ENCODE_more_celllines/HepG2/Cut_bedfiles/ENCFF002CLG.cut.bed.gz \
--annotations=/scratchb/sblab/spiege01/ENCODE_more_celllines/HepG2/Cut_bedfiles/ENCFF002CLJ.cut.bed.gz \
--annotations=/scratchb/sblab/spiege01/ENCODE_more_celllines/HepG2/Cut_bedfiles/ENCFF002CUE.cut.bed.gz \
--annotations=/scratchb/sblab/spiege01/ENCODE_more_celllines/HepG2/Cut_bedfiles/ENCFF002CUL.cut.bed.gz \
--annotations=/scratchb/sblab/spiege01/ENCODE_more_celllines/HepG2/Cut_bedfiles/ENCFF002CUQ.cut.bed.gz \
--annotations=/scratchb/sblab/spiege01/ENCODE_more_celllines/HepG2/Cut_bedfiles/ENCFF002CUX.cut.bed.gz \
--annotations=/scratchb/sblab/spiege01/ENCODE_more_celllines/HepG2/Cut_bedfiles/ENCFF002CUY.cut.bed.gz \
--annotations=/scratchb/sblab/spiege01/ENCODE_more_celllines/HepG2/Cut_bedfiles/ENCFF002CUZ.cut.bed.gz \
--annotations=/scratchb/sblab/spiege01/ENCODE_more_celllines/HepG2/Cut_bedfiles/ENCFF002CVA.cut.bed.gz \
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--annotations=/scratchb/sblab/spiege01/ENCODE_more_celllines/HepG2/Cut_bedfiles/ENCFF002DAX.cut.bed.gz \
--annotations=/scratchb/sblab/spiege01/ENCODE_more_celllines/HepG2/Cut_bedfiles/ENCFF002DAY.cut.bed.gz \
--annotations=/scratchb/sblab/spiege01/ENCODE_more_celllines/HepG2/Cut_bedfiles/ENCFF002DCX.cut.bed.gz \
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--annotations=/scratchb/sblab/spiege01/ENCODE_more_celllines/HepG2/Cut_bedfiles/ENCFF028BDC.cut.bed.gz \
--annotations=/scratchb/sblab/spiege01/ENCODE_more_celllines/HepG2/Cut_bedfiles/ENCFF033BDT.cut.bed.gz \
--annotations=/scratchb/sblab/spiege01/ENCODE_more_celllines/HepG2/Cut_bedfiles/ENCFF037KBA.cut.bed.gz \
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--annotations=/scratchb/sblab/spiege01/ENCODE_more_celllines/HepG2/Cut_bedfiles/ENCFF038QAU.cut.bed.gz \
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--annotations=/scratchb/sblab/spiege01/ENCODE_more_celllines/HepG2/Cut_bedfiles/ENCFF070SCG.cut.bed.gz \
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--annotations=/scratchb/sblab/spiege01/ENCODE_more_celllines/HepG2/Cut_bedfiles/ENCFF095TYO.cut.bed.gz \
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--annotations=/scratchb/sblab/spiege01/ENCODE_more_celllines/HepG2/Cut_bedfiles/ENCFF104YWL.cut.bed.gz \
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--annotations=/scratchb/sblab/spiege01/ENCODE_more_celllines/HepG2/Cut_bedfiles/ENCFF115RUG.cut.bed.gz \
--annotations=/scratchb/sblab/spiege01/ENCODE_more_celllines/HepG2/Cut_bedfiles/ENCFF121UYS.cut.bed.gz \
--annotations=/scratchb/sblab/spiege01/ENCODE_more_celllines/HepG2/Cut_bedfiles/ENCFF132BFM.cut.bed.gz \
--annotations=/scratchb/sblab/spiege01/ENCODE_more_celllines/HepG2/Cut_bedfiles/ENCFF132QLW.cut.bed.gz \
--annotations=/scratchb/sblab/spiege01/ENCODE_more_celllines/HepG2/Cut_bedfiles/ENCFF140ARE.cut.bed.gz \
--annotations=/scratchb/sblab/spiege01/ENCODE_more_celllines/HepG2/Cut_bedfiles/ENCFF144FQA.cut.bed.gz \
--annotations=/scratchb/sblab/spiege01/ENCODE_more_celllines/HepG2/Cut_bedfiles/ENCFF147MAN.cut.bed.gz \
--annotations=/scratchb/sblab/spiege01/ENCODE_more_celllines/HepG2/Cut_bedfiles/ENCFF153JLK.cut.bed.gz \
--annotations=/scratchb/sblab/spiege01/ENCODE_more_celllines/HepG2/Cut_bedfiles/ENCFF153JOG.cut.bed.gz \
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--annotations=/scratchb/sblab/spiege01/ENCODE_more_celllines/HepG2/Cut_bedfiles/ENCFF192DTE.cut.bed.gz \
--annotations=/scratchb/sblab/spiege01/ENCODE_more_celllines/HepG2/Cut_bedfiles/ENCFF199GND.cut.bed.gz \
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--annotations=/scratchb/sblab/spiege01/ENCODE_more_celllines/HepG2/Cut_bedfiles/ENCFF210DMP.cut.bed.gz \
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--workspace=/scratchb/sblab/spiege01/ENCODE_more_celllines/HepG2/HepG2_reference/Mod_ChromM/Whitelist_chrM.bed \
–-ignore-segment-tracks \
--num-samples=10000 \
--log=/scratchb/sblab/spiege01/ENCODE_more_celllines/HepG2/GAT_shuffling/Logs/GAT_HepG2_rep1-3.WL.Log \
--num-threads=16 > /scratchb/sblab/spiege01/ENCODE_more_celllines/HepG2/GAT_shuffling/GAT_output/GAT_HepG2_rep1-3.WL.tsv