diff --git a/Step_1/Step1_samtools_merge_sort_index_Cor.sh.txt b/Step_1/Step1_samtools_merge_sort_index_Cor.sh.txt new file mode 100644 index 0000000000000000000000000000000000000000..437ad0c1bcc77e0c275d8e5825eb017aadc40afb --- /dev/null +++ b/Step_1/Step1_samtools_merge_sort_index_Cor.sh.txt @@ -0,0 +1,9 @@ +module load SAMtools + +cd /data/user/rphill3/Enhancer_Ident_ATAC + +samtools merge Cor_ATAC_merged.bam ATAC_K2_S1.bam ATAC_K3_S2.bam ATAC_K4_S3.bam ATAC_V1_S4.bam ATAC_V2_S5.bam ATAC_V3_S6.bam + +samtools sort Cor_ATAC_merged.bam -o Cor_ATAC_merged.sorted.bam + +samtools index Cor_ATAC_merged.sorted.bam Cor_ATAC_merged.sorted.bam.bai