cd ./cuffdiff_M14_vs_M14mut; 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 M14 M14mut http://genomics-lab.fleming.gr/fleming/Cereghini/run299 mm10 ; cd ..
cd ./cuffdiff_F16_vs_F16mut; 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 F16 F16mut http://genomics-lab.fleming.gr/fleming/Cereghini/run299 mm10 ; cd ..