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nathanhaigh/mlFASTA2slFASTA.sh

Created November 14, 2014 04:09
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Convert a FASTA file containing multi-line (wrapped) sequences to occupy a single line
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mlFASTA2slFASTA.sh
#!/bin/bash
# Convert a multi-line FASTA file into a single line FASTA file
# These are easier/faster to process using native UNIX tools like paste - - < in.fasta
dos2unix | awk 'BEGIN { RS = "\n>"; FS = "\n"; OFS = "" };
{
if (NR == 1) {
print $1
} else
if (NR > 1) {
print ">"$1
}
$1=""
print
}'
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