released/pIRS.old/stat_illumina_reads/gcvgstater/self_util.h

   1 #ifndef _SELF_UTIL_H_
   2 #define _SELF_UTIL_H_
   3
   4 #include <string>
   5 #include <vector>
   6 #include <stdint.h>
   7 #include <sstream>
   8 #include <cstring>
   9 #include <ctype.h>
  10 #include <algorithm>
  11 using namespace std;
  12
  13 void TrimLeft(string& str);
  14 void TrimRight(string& str);
  15 vector<string> splitString(string str, string delims=" \t\n");
  16 vector<int> splitStringToInt(string str, string delims=" \t\n");
  17 int toInt(string str);
  18 uint64_t toUint64(string str);
  19 template <typename T>
  20 string toStr(T t)
  21 {
  22     stringstream ss;
  23     ss << t;
  24     string s;
  25     ss >> s;
  26     return s;
  27 }
  28
  29 string ToUpper(string str);
  30 string ToLower(string str);
  31
  32
  33 #ifndef _BIOINFO_UTIL_
  34 #define _BIOINFO_UTIL_
  35
  36 uint64_t seq2bit(string &kseq);
  37
  38 string bit2seq(uint64_t kbit, int kmerSize);
  39 bool check_seq (string &seq);
  40 void reverse_complement (string &in_str, string &out_str);
  41
  42 #endif
  43
  44 #endif