added uchime_src folder. added biom parameter to make.shared. added biom as a current...

[mothur.git] / uchime_src / evalue.h

diff --git a/uchime_src/evalue.h b/uchime_src/evalue.h
new file mode 100644 (file)
index 0000000..c9308db
--- /dev/null
+++ b/uchime_src/evalue.h
@@ -0,0 +1,25 @@
+#ifndef evalue_h\r
+#define evalue_h\r
+\r
+#include <float.h>\r
+\r
+void SetKarlin(double GappedLambda, double UngappedLambda,\r
+  double GappedK, double UngappedK, double DBLength);\\r
+\r
+double GetKarlinDBLength();\r
+void SetKarlinDBLength(double DBLength);\r
+void LogKarlin();\r
+void SetKarlinAmino(double DBLength);\r
+void SetKarlinNucleo(double DBLength);\r
+void SetKarlin(double DBLength, bool Nucleo);\r
+double ComputeBitScoreGapped(double Score);\r
+double ComputeBitScoreUngapped(double Score);\r
+double ComputeEvalueGapped(double Score, unsigned QueryLength);\r
+double ComputeEvalueUngapped(double Score, unsigned QueryLength);\r
+double ComputeMinScoreGivenEvalueAGapped(double Evalue, unsigned Area);\r
+double ComputeMinScoreGivenEvalueAUngapped(double Evalue, unsigned Area);\r
+double ComputeMinScoreGivenEvalueQGapped(double Evalue, unsigned QueryLength);\r
+double ComputeMinScoreGivenEvalueQUngapped(double Evalue, unsigned QueryLength);\r
+double ComputeEvalueGappedFromBitScore(double BitScore, unsigned QueryLength);\r
+\r
+#endif // evalue_h\r