diff --git a/intro-rna-seq/all_steps.sh b/intro-rna-seq/all_steps.sh deleted file mode 100644 index d404af0..0000000 --- a/intro-rna-seq/all_steps.sh +++ /dev/null @@ -1,28 +0,0 @@ -#!/bin/bash - -fastqc Bacteria_GATTACA_L001_R1_001.fastq - -cutadapt \ --a file:Adapter_Sequence.fasta \ --o trimmed.fastq \ -Bacteria_GATTACA_L001_R1_001.fastq - -fastqc trimmed.fastq - -mkdir star_index - -STAR \ ---runMode genomeGenerate \ ---genomeDir ./star_index \ ---genomeFastaFiles rDNA_sequence.fasta \ ---genomeSAindexNbases 3 - -STAR \ ---genomeDir ./star_index \ ---readFilesIn ./trimmed.fastq - -featureCounts \ --a rDNA.gtf \ --t CDS \ --o counts.txt \ -Aligned.out.sam