sahilseth/gtf_add_chr.sh

Created November 3, 2015 18:28

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Adding chr to a GTF file

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gtf_add_chr.sh

awk '{ if($1 !~ /^#/){print "chr"$0} else{print $0} }'  Homo_sapiens.GRCh37.75.gtf

aseetharam commented Oct 5, 2023

X and Y would be excluded with that. Instead, you can use this:

awk '{ if($1 ~ /^[0-9]+$/ || $1 ~ /^(X|Y)$/){print "chr"$0} else{print $0} }' yourfile.gtf

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