bunzip2 -df /projects/NBL/HS1795/700B4AAXX_3/tophat_wj/700B4AAXX_3_1_concat_qseq.txt.bz2 ...
bunzip2 -df /projects/NBL/HS1795/700B4AAXX_3/tophat_wj/700B4AAXX_3_2_concat_qseq.txt.bz2 ...
/home/rcorbett/aligners/tophat/tophat-1.0.13/bin/tophat -r 241 -o /projects/NBL/HS1795/700B4AAXX_3/tophat_wj -G /projects/NBL/reference_files/UCSC/all.gtf.gff3 /projects/rcorbettprj/trans_abyss/bowtie_index/hg18 /projects/NBL/HS1795/700B4AAXX_3/tophat_wj/700B4AAXX_3_1.fastq /projects/NBL/HS1795/700B4AAXX_3/tophat_wj/700B4AAXX_3_2.fastq ...