From c9692a2c6656ac2fc8b7ae885fd93489e9fd5f14 Mon Sep 17 00:00:00 2001
From: Calvin <calvin@EESI>
Date: Tue, 5 Mar 2013 12:33:52 -0500
Subject: Added generate_kmers.py

This little script will output all the possible kmer permutations to
stdout. The only input is the kmer length desired.

Here are some examples.

output 2mers
  ./generate_kmers.py 2 > 2mers.py

output N-mers up to 6 with a bit of bash-foo
  for i in `seq 6`; do ./generate_kmers.py $i > ${i}mers.txt; done;
---
 generate_kmers.py | 7 +++++++
 1 file changed, 7 insertions(+)
 create mode 100755 generate_kmers.py

(limited to 'generate_kmers.py')

diff --git a/generate_kmers.py b/generate_kmers.py
new file mode 100755
index 0000000..4cd9aca
--- /dev/null
+++ b/generate_kmers.py
@@ -0,0 +1,7 @@
+#!/usr/bin/python
+import itertools
+import sys
+
+kmer_array ='\n'.join(''.join(x) for x in itertools.product('acgt', repeat=int(sys.argv[1])))
+
+print kmer_array
-- 
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