From c1a34163771229aa269ada443c6baa38f3073c11 Mon Sep 17 00:00:00 2001
From: Calvin Morrison <mutantturkey@gmail.com>
Date: Fri, 18 Oct 2013 10:26:12 -0400
Subject: add kmercounting code from dna-utils. update our make file to support
 debugging, and update quikr to count-kmer code internally

---
 src/c/kmer_utils.h | 11 +++++++++++
 1 file changed, 11 insertions(+)
 create mode 100644 src/c/kmer_utils.h

(limited to 'src/c/kmer_utils.h')

diff --git a/src/c/kmer_utils.h b/src/c/kmer_utils.h
new file mode 100644
index 0000000..34cedca
--- /dev/null
+++ b/src/c/kmer_utils.h
@@ -0,0 +1,11 @@
+// Kmer functions
+void convert_kmer_to_num(char *str, const unsigned long length);
+unsigned long long * get_kmer_counts_from_file(const char *fn, const int kmer);
+unsigned long num_to_index(const char *str, const int kmer, int *position, const long error_pos);
+
+// Utility functions
+char *strnstrip(const char *s, char *dest, int c, int len);
+unsigned long long pow_four(unsigned long long x);
+
+// Variables
+const unsigned char alpha[256]; 
-- 
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