-
Notifications
You must be signed in to change notification settings - Fork 0
/
Copy pathcmd_fc.sh
9 lines (9 loc) · 4.26 KB
/
cmd_fc.sh
1
2
3
4
5
6
7
8
9
bsub -J 136PC2_ClbPdelta_1_IGO_14764_4 -eo logs/136PC2_ClbPdelta_1_IGO_14764_4.featureCounts.err -oo logs/136PC2_ClbPdelta_1_IGO_14764_4.featureCounts.log -M 16 singularity run -B /juno -B /home ~/chois7/singularity/sif/featurecount.sif featureCounts -p -O -T 4 -a reference/gencode.v31.annotation.gtf -g gene_name -o results/featurecounts/136PC2_ClbPdelta_1_IGO_14764_4.counts.txt results/star/136PC2_ClbPdelta_1_IGO_14764_4/136PC2_ClbPdelta_1_IGO_14764_4.Aligned.sortedByCoord.out.bam
bsub -J 136PC2_ClbPdelta_2_IGO_14764_5 -eo logs/136PC2_ClbPdelta_2_IGO_14764_5.featureCounts.err -oo logs/136PC2_ClbPdelta_2_IGO_14764_5.featureCounts.log -M 16 singularity run -B /juno -B /home ~/chois7/singularity/sif/featurecount.sif featureCounts -p -O -T 4 -a reference/gencode.v31.annotation.gtf -g gene_name -o results/featurecounts/136PC2_ClbPdelta_2_IGO_14764_5.counts.txt results/star/136PC2_ClbPdelta_2_IGO_14764_5/136PC2_ClbPdelta_2_IGO_14764_5.Aligned.sortedByCoord.out.bam
bsub -J 136PC2_ClbPdelta_3_IGO_14764_6 -eo logs/136PC2_ClbPdelta_3_IGO_14764_6.featureCounts.err -oo logs/136PC2_ClbPdelta_3_IGO_14764_6.featureCounts.log -M 16 singularity run -B /juno -B /home ~/chois7/singularity/sif/featurecount.sif featureCounts -p -O -T 4 -a reference/gencode.v31.annotation.gtf -g gene_name -o results/featurecounts/136PC2_ClbPdelta_3_IGO_14764_6.counts.txt results/star/136PC2_ClbPdelta_3_IGO_14764_6/136PC2_ClbPdelta_3_IGO_14764_6.Aligned.sortedByCoord.out.bam
bsub -J 136PC2_ClbPpos_1_IGO_14764_1 -eo logs/136PC2_ClbPpos_1_IGO_14764_1.featureCounts.err -oo logs/136PC2_ClbPpos_1_IGO_14764_1.featureCounts.log -M 16 singularity run -B /juno -B /home ~/chois7/singularity/sif/featurecount.sif featureCounts -p -O -T 4 -a reference/gencode.v31.annotation.gtf -g gene_name -o results/featurecounts/136PC2_ClbPpos_1_IGO_14764_1.counts.txt results/star/136PC2_ClbPpos_1_IGO_14764_1/136PC2_ClbPpos_1_IGO_14764_1.Aligned.sortedByCoord.out.bam
bsub -J 136PC2_ClbPpos_2_IGO_14764_2 -eo logs/136PC2_ClbPpos_2_IGO_14764_2.featureCounts.err -oo logs/136PC2_ClbPpos_2_IGO_14764_2.featureCounts.log -M 16 singularity run -B /juno -B /home ~/chois7/singularity/sif/featurecount.sif featureCounts -p -O -T 4 -a reference/gencode.v31.annotation.gtf -g gene_name -o results/featurecounts/136PC2_ClbPpos_2_IGO_14764_2.counts.txt results/star/136PC2_ClbPpos_2_IGO_14764_2/136PC2_ClbPpos_2_IGO_14764_2.Aligned.sortedByCoord.out.bam
bsub -J 136PC2_ClbPpos_3_IGO_14764_3 -eo logs/136PC2_ClbPpos_3_IGO_14764_3.featureCounts.err -oo logs/136PC2_ClbPpos_3_IGO_14764_3.featureCounts.log -M 16 singularity run -B /juno -B /home ~/chois7/singularity/sif/featurecount.sif featureCounts -p -O -T 4 -a reference/gencode.v31.annotation.gtf -g gene_name -o results/featurecounts/136PC2_ClbPpos_3_IGO_14764_3.counts.txt results/star/136PC2_ClbPpos_3_IGO_14764_3/136PC2_ClbPpos_3_IGO_14764_3.Aligned.sortedByCoord.out.bam
bsub -J 136PC2_nobacteria_1_IGO_14764_7 -eo logs/136PC2_nobacteria_1_IGO_14764_7.featureCounts.err -oo logs/136PC2_nobacteria_1_IGO_14764_7.featureCounts.log -M 16 singularity run -B /juno -B /home ~/chois7/singularity/sif/featurecount.sif featureCounts -p -O -T 4 -a reference/gencode.v31.annotation.gtf -g gene_name -o results/featurecounts/136PC2_nobacteria_1_IGO_14764_7.counts.txt results/star/136PC2_nobacteria_1_IGO_14764_7/136PC2_nobacteria_1_IGO_14764_7.Aligned.sortedByCoord.out.bam
bsub -J 136PC2_nobacteria_2_IGO_14764_8 -eo logs/136PC2_nobacteria_2_IGO_14764_8.featureCounts.err -oo logs/136PC2_nobacteria_2_IGO_14764_8.featureCounts.log -M 16 singularity run -B /juno -B /home ~/chois7/singularity/sif/featurecount.sif featureCounts -p -O -T 4 -a reference/gencode.v31.annotation.gtf -g gene_name -o results/featurecounts/136PC2_nobacteria_2_IGO_14764_8.counts.txt results/star/136PC2_nobacteria_2_IGO_14764_8/136PC2_nobacteria_2_IGO_14764_8.Aligned.sortedByCoord.out.bam
bsub -J 136PC2_nobacteria_3_IGO_14764_9 -eo logs/136PC2_nobacteria_3_IGO_14764_9.featureCounts.err -oo logs/136PC2_nobacteria_3_IGO_14764_9.featureCounts.log -M 16 singularity run -B /juno -B /home ~/chois7/singularity/sif/featurecount.sif featureCounts -p -O -T 4 -a reference/gencode.v31.annotation.gtf -g gene_name -o results/featurecounts/136PC2_nobacteria_3_IGO_14764_9.counts.txt results/star/136PC2_nobacteria_3_IGO_14764_9/136PC2_nobacteria_3_IGO_14764_9.Aligned.sortedByCoord.out.bam