cd /N/dc2/projects/marinovg/Paramecium/RNA-seq/2015-04-13-promoters; /N/dc2/projects/marinovg/programs/stringtie-1.0.3.Linux_x86_64/stringtie Conjugation-2h-GSM692085-2x75-TopHat-2.0.8-minIntron10/accepted_hits.bam -G /N/dc2/projects/marinovg/genomes/Ciliates/Tetrahymena_thermophila/Tetrahymena_thermophila.JCVI-TTA1-2.2.20.gtf -o Conjugation-2h-GSM692085-2x75-TopHat-2.0.8-minIntron10/stringtie-1.0.3-de-novo+JCVI-TTA1-2.2.20.gff -p 16 -l Conjugation-2h-GSM692085
cd /N/dc2/projects/marinovg/Paramecium/RNA-seq/2015-04-13-promoters; /N/dc2/projects/marinovg/programs/stringtie-1.0.3.Linux_x86_64/stringtie Conjugation-8h-GSM692086-2x75-TopHat-2.0.8-minIntron10/accepted_hits.bam -G /N/dc2/projects/marinovg/genomes/Ciliates/Tetrahymena_thermophila/Tetrahymena_thermophila.JCVI-TTA1-2.2.20.gtf -o Conjugation-8h-GSM692086-2x75-TopHat-2.0.8-minIntron10/stringtie-1.0.3-de-novo+JCVI-TTA1-2.2.20.gff -p 16 -l Conjugation-8h-GSM692086
cd /N/dc2/projects/marinovg/Paramecium/RNA-seq/2015-04-13-promoters; /N/dc2/projects/marinovg/programs/stringtie-1.0.3.Linux_x86_64/stringtie Growth-m-GSM692081-2x75-TopHat-2.0.8-minIntron10/accepted_hits.bam -G /N/dc2/projects/marinovg/genomes/Ciliates/Tetrahymena_thermophila/Tetrahymena_thermophila.JCVI-TTA1-2.2.20.gtf -o Growth-m-GSM692081-2x75-TopHat-2.0.8-minIntron10/stringtie-1.0.3-de-novo+JCVI-TTA1-2.2.20.gff -p 16 -l Growth-m-GSM692081
cd /N/dc2/projects/marinovg/Paramecium/RNA-seq/2015-04-13-promoters; /N/dc2/projects/marinovg/programs/stringtie-1.0.3.Linux_x86_64/stringtie Starvation-15h-VI-GSM692084-2x75-TopHat-2.0.8-minIntron10/accepted_hits.bam -G /N/dc2/projects/marinovg/genomes/Ciliates/Tetrahymena_thermophila/Tetrahymena_thermophila.JCVI-TTA1-2.2.20.gtf -o Starvation-15h-VI-GSM692084-2x75-TopHat-2.0.8-minIntron10/stringtie-1.0.3-de-novo+JCVI-TTA1-2.2.20.gff -p 16 -l Starvation-15h-VI-GSM692084
cd /N/dc2/projects/marinovg/Paramecium/RNA-seq/2015-04-13-promoters; /N/dc2/projects/marinovg/programs/stringtie-1.0.3.Linux_x86_64/stringtie Starvation-3h-V-GSM692083-2x75-TopHat-2.0.8-minIntron10/accepted_hits.bam -G /N/dc2/projects/marinovg/genomes/Ciliates/Tetrahymena_thermophila/Tetrahymena_thermophila.JCVI-TTA1-2.2.20.gtf -o Starvation-3h-V-GSM692083-2x75-TopHat-2.0.8-minIntron10/stringtie-1.0.3-de-novo+JCVI-TTA1-2.2.20.gff -p 16 -l Starvation-3h-V-GSM692083
cd /N/dc2/projects/marinovg/Paramecium/RNA-seq/2015-04-13-promoters; /N/dc2/projects/marinovg/programs/stringtie-1.0.3.Linux_x86_64/stringtie Starvation-3h-VI-GSM692082-2x75-TopHat-2.0.8-minIntron10/accepted_hits.bam -G /N/dc2/projects/marinovg/genomes/Ciliates/Tetrahymena_thermophila/Tetrahymena_thermophila.JCVI-TTA1-2.2.20.gtf -o Starvation-3h-VI-GSM692082-2x75-TopHat-2.0.8-minIntron10/stringtie-1.0.3-de-novo+JCVI-TTA1-2.2.20.gff -p 16 -l Starvation-3h-VI-GSM692082