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annotate amrformat.pl @ 2:ae0d90df065f

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Uploaded
author estrain
date Wed, 29 Jan 2020 16:33:31 -0500
parents 514bd7256422
children abe5635dd846
rev   line source
estrain@0 1 #!/usr/bin/perl
estrain@0 2
estrain@0 3 open IN,$ARGV[0];
estrain@0 4
estrain@0 5 open OUT,">$ARGV[1]";
estrain@0 6
estrain@0 7 my %iso_hash;
estrain@0 8
estrain@0 9 ## Skip header
estrain@0 10 <IN>;
estrain@0 11
estrain@0 12 while(<IN>) {
estrain@0 13 chomp();
estrain@0 14 @vals=split(/\t/,$_);
estrain@0 15 @els=split(/\_/,$vals[0]);
estrain@0 16 if(exists $iso_hash{$els[0]}){
estrain@0 17 $iso_hash{$els[0]}="$iso_hash{$els[0]} $vals[1]";
estrain@0 18 } else {
estrain@0 19 $iso_hash{$els[0]}=$vals[1];
estrain@0 20 }
estrain@0 21 }
estrain@0 22
estrain@0 23
estrain@0 24 print OUT "Source.Name\tGene symbol\n";
estrain@0 25 foreach(sort keys %iso_hash){
estrain@0 26 print OUT $_,"\t",$iso_hash{$_},"\n";
estrain@0 27 }
estrain@0 28