ngs.plot.r -G hg19 -R genebody -C gm_untr_r50.txt -O gm_untr_r50
ngs.plot.r -G hg19 -R genebody -C gm_untr_r51.txt -O gm_untr_r51
ngs.plot.r -G hg19 -R genebody -C gm_untr_r52.txt -O gm_untr_r52

for i in gm_t*txt
 do
 ngs.plot.r -G hg19 -R genebody -C $i -O $i
 done

ngs.plot.r -G hg19 -R tss -C /data/images/proton/run90/chipseq-pol2/rnaseq_at_chipseq_plots/chipseq_untr_high.txt -O chipseq_untr_high_tss.txt -L 5000
ngs.plot.r -G hg19 -R genebody -C /data/images/proton/run90/chipseq-pol2/rnaseq_at_chipseq_plots/chipseq_untr_high.txt -O chipseq_untr_high.txt
ngs.plot.r -G hg19 -R genebody -C /data/images/proton/run90/chipseq-pol2/rnaseq_at_chipseq_plots/chipseq_untr_medium.txt -O chipseq_untr_medium.txt
ngs.plot.r -G hg19 -R genebody -C /data/images/proton/run90/chipseq-pol2/rnaseq_at_chipseq_plots/chipseq_untr_low.txt -O chipseq_untr_low.txt

ngs.plot.r -G hg19 -R genebody -C /data/images/proton/run90/chipseq-pol2/rnaseq_at_chipseq_plots/chipseq_tr30m_high.txt  -O chipseq_tr30m_high.txt
ngs.plot.r -G hg19 -R genebody -C /data/images/proton/run90/chipseq-pol2/rnaseq_at_chipseq_plots/chipseq_tr30m_recov1h_high.txt   -O chipseq_tr30m_recov1h_high.txt 

ngs.plot.r -G hg19 -R tss -C /data/images/proton/run90/chipseq-pol2/rnaseq_at_chipseq_plots/chipseq_untr_high.txt -O chipseq_untr_high_tss.txt -L 5000
ngs.plot.r -G hg19 -R tss -C /data/images/proton/run90/chipseq-pol2/rnaseq_at_chipseq_plots/chipseq_tr30m_high.txt  -O chipseq_tr30m_high_tss.txt -L 5000
ngs.plot.r -G hg19 -R tss -C /data/images/proton/run90/chipseq-pol2/rnaseq_at_chipseq_plots/chipseq_tr30m_recov1h_high.txt   -O chipseq_tr30m_recov1h_high_tss.txt  -L 5000


ngs.plot.r -G hg19 -R genebody -C /data/images/proton/run90/chipseq-pol2/rnaseq_at_chipseq_plots/mix1.txt    -O mix1
ngs.plot.r -G hg19 -R tss -C /data/images/proton/run90/chipseq-pol2/rnaseq_at_chipseq_plots/mix1.txt    -O mix1_tss -L 5000