bluegenes/fix_fq_headers.sh

Created October 30, 2018 21:07

Star () You must be signed in to star a gist
Fork () You must be signed in to fork a gist

Learn more about clone URLs
Clone this repository at <script src="https://gist.github.com/bluegenes/f495628ace8b16e845780009255e0f41.js"></script>
Save bluegenes/f495628ace8b16e845780009255e0f41 to your computer and use it in GitHub Desktop.

Download ZIP

fix ENA fastq headers for trinity

Raw

fix_fq_headers.sh

	for f in *fq.gz; do
	echo 'starting on file' $f
	cp "$f" "$f~" &&
	gzip -cd "$f~" \| sed 's/^@ERR\S*\s/@/' \| gzip > "$f"
	rm "$f~"
	done

Sign up for free to join this conversation on GitHub. Already have an account? Sign in to comment