initial commit

1 files changed, 33 insertions, 0 deletions

diff --git a/below_melting_temperature.py b/below_melting_temperature.py
new file mode 100644
index 0000000..bc4157e
--- /dev/null
+++ b/below_melting_temperature.py
@@ -0,0 +1,33 @@
+import sys
+from multiprocessing import Pool
+
+def above_melting_temperature(kmer_with_count):
+	kmer = kmer_with_count.split("\t")[0]
+
+	A = kmer.count('A')
+	C = kmer.count('C')
+	G = kmer.count('G')
+	T = kmer.count('T')
+
+	melt_temp = 0.0;
+
+	if len(kmer) < 13:
+		melt_temp = ((A+T) * 2) + ((C+G) * 4)
+	else:
+		melt_temp = 64.9 + 41*(G+C-16.4)/(A+T+G+C)
+
+	if melt_temp < max_melting_temp:
+		return kmer_with_count
+	else:
+		return 0
+
+
+lines = sys.stdin.readlines()
+max_melting_temp = float(sys.argv[1])
+
+p = Pool()
+output = p.map(above_melting_temperature, lines)
+
+for line in output:
+	if line != 0:
+		sys.stdout.write(line)