20251125

2025-11-25 00:28:51 +08:00
commit eb3f16c30e
406 changed files with 91653 additions and 0 deletions
@@ -0,0 +1,31 @@
+#!/usr/bin/env perl
+
+use strict;
+use warnings;
+
+use FindBin;
+use lib ("$FindBin::RealBin/../../PerlLib");
+use Fasta_reader;
+
+my $usage = "usage: $0 file.fa [kmer_length=25]\n\n";
+
+my $fa_file = $ARGV[0] or die $usage;
+my $kmer_length = $ARGV[1] || 25;
+
+main: {
+
+    my $fasta_reader = new Fasta_reader($fa_file);
+    while (my $seq_obj = $fasta_reader->next()) {
+        
+        my $sequence = $seq_obj->get_sequence();
+        
+        for (my $i = 0; $i < length($sequence) - $kmer_length + 1; $i++) {
+            
+            my $kmer = substr($sequence, $i, $kmer_length);
+
+            print "$kmer\n";
+        }
+    }
+
+    exit(0);
+}