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Code Block

language	bash
title	get a bam file from Nathan's scratch area

ssh user@login8.stampede.tacc.utexas.edu
cds
mkdir samtools
cd samtools
cp /scratch/02423/nsabell/ $SCRATCH/core_ngs/alignment/bam/yeast_pairedend.bam .

Sorting and Indexing a bam file: samtools index, sort

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