cd ./cuffdiff_GBM_vs_GBF; awk -f /data/results/tools/rnaseq/get-biotypes-for-isoforms1.awk isoform_exp.diff | awk -f /data/images/proton/tsv2csv.awk  > isoform_exp.diff.csv ; libreoffice --headless --convert-to xlsx:"Calc MS Excel 2007 XML"  isoform_exp.diff.csv ; awk -f /data/images/proton/tsv2csv.awk gene_exp.diff > gene_exp.diff.csv ; libreoffice --headless --convert-to xlsx:"Calc MS Excel 2007 XML"  gene_exp.diff.csv ;
#Rscript /data/images/proton/cummerbund-report2.r GBM GBF http://genomics-lab.fleming.gr/fleming/ITlab/run298theresa mm10 ;
cd ..
cd ./cuffdiff_GBF_vs_LF; awk -f /data/results/tools/rnaseq/get-biotypes-for-isoforms1.awk isoform_exp.diff | awk -f /data/images/proton/tsv2csv.awk  > isoform_exp.diff.csv ; libreoffice --headless --convert-to xlsx:"Calc MS Excel 2007 XML"  isoform_exp.diff.csv ; awk -f /data/images/proton/tsv2csv.awk gene_exp.diff > gene_exp.diff.csv ; libreoffice --headless --convert-to xlsx:"Calc MS Excel 2007 XML"  gene_exp.diff.csv ;
#Rscript /data/images/proton/cummerbund-report2.r GBF LF http://genomics-lab.fleming.gr/fleming/ITlab/run298theresa mm10 ;
cd ..
cd ./cuffdiff_LM_vs_LF; awk -f /data/results/tools/rnaseq/get-biotypes-for-isoforms1.awk isoform_exp.diff | awk -f /data/images/proton/tsv2csv.awk  > isoform_exp.diff.csv ; libreoffice --headless --convert-to xlsx:"Calc MS Excel 2007 XML"  isoform_exp.diff.csv ; awk -f /data/images/proton/tsv2csv.awk gene_exp.diff > gene_exp.diff.csv ; libreoffice --headless --convert-to xlsx:"Calc MS Excel 2007 XML"  gene_exp.diff.csv ;
cd ..
#Rscript /data/images/proton/cummerbund-report2.r LM LF http://genomics-lab.fleming.gr/fleming/ITlab/run298theresa mm10 ; 
cd ./cuffdiff_GBM_vs_LM; awk -f /data/results/tools/rnaseq/get-biotypes-for-isoforms1.awk isoform_exp.diff | awk -f /data/images/proton/tsv2csv.awk  > isoform_exp.diff.csv ; libreoffice --headless --convert-to xlsx:"Calc MS Excel 2007 XML"  isoform_exp.diff.csv ; awk -f /data/images/proton/tsv2csv.awk gene_exp.diff > gene_exp.diff.csv ; libreoffice --headless --convert-to xlsx:"Calc MS Excel 2007 XML"  gene_exp.diff.csv ;
#Rscript /data/images/proton/cummerbund-report2.r GBM LM http://genomics-lab.fleming.gr/fleming/ITlab/run298theresa mm10 ;
cd ..