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Exercise: How many contigs are there in the sacCer3 reference?

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title	Setup (if needed)

Code Block

language	bash
title	Get the alignment exercises files

mkdir -p $SCRATCH/core_ngs/references/fasta
cp $CORENGS/references/*.fa $SCRATCH/core_ngs/references/fasta/

Expand

title	Hint

Code Block

language	bash

cd $SCRATCH/core_ngs/references/fasta
grep -P '^>' sacCer3.fa | wc -l

Or use grep's -c option that says "just count the line matches"

Code Block

language	bash

grep -P -c '^>' sacCer3.fa

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