cd /N/dc2/projects/marinovg/2015-02-24-Paramecium-RNA-seq; module load trinityrnaseq/2014-07-17; export PATH=/N/dc2/projects/marinovg/programs/bowtie-0.12.9:$PATH; Trinity --SS_lib_type RF --CPU 16 --full_cleanup --min_kmer_cov 5 --inchworm_cpu 16 --bflyCPU 16 --seqType fq --JM 100G --left /N/dc2/projects/marinovg/2015-02-24-Paramecium-RNA-seq/Sample_K412.end1.end1.fastq.paired.trimmed.gz --right /N/dc2/projects/marinovg/2015-02-24-Paramecium-RNA-seq/Sample_K412.end2.end1.fastq.paired.trimmed.gz --output trinityrnaseq_r2014-07-17-Sample_K412
cd /N/dc2/projects/marinovg/2015-02-24-Paramecium-RNA-seq; module load trinityrnaseq/2014-07-17; export PATH=/N/dc2/projects/marinovg/programs/bowtie-0.12.9:$PATH; Trinity --SS_lib_type RF --CPU 16 --full_cleanup --min_kmer_cov 5 --inchworm_cpu 16 --bflyCPU 16 --seqType fq --JM 100G --left /N/dc2/projects/marinovg/2015-02-24-Paramecium-RNA-seq/Sample_2V.end1.end1.fastq.paired.trimmed.gz --right /N/dc2/projects/marinovg/2015-02-24-Paramecium-RNA-seq/Sample_2V.end2.end1.fastq.paired.trimmed.gz --output trinityrnaseq_r2014-07-17-Sample_2V
cd /N/dc2/projects/marinovg/2015-02-24-Paramecium-RNA-seq; module load trinityrnaseq/2014-07-17; export PATH=/N/dc2/projects/marinovg/programs/bowtie-0.12.9:$PATH; Trinity --SS_lib_type RF --CPU 16 --full_cleanup --min_kmer_cov 5 --inchworm_cpu 16 --bflyCPU 16 --seqType fq --JM 100G --left /N/dc2/projects/marinovg/2015-02-24-Paramecium-RNA-seq/Sample_1V.end1.end1.fastq.paired.trimmed.gz --right /N/dc2/projects/marinovg/2015-02-24-Paramecium-RNA-seq/Sample_1V.end2.end1.fastq.paired.trimmed.gz --output trinityrnaseq_r2014-07-17-Sample_1V