MACS3/Signal/cPosValCalculation.h

   1 /* Time-stamp: <2020-11-20 16:37:31 Tao Liu>
   2
   3  This code is free software; you can redistribute it and/or modify it
   4  under the terms of the BSD License (see the file LICENSE included
   5  with the distribution).
   6 */
   7
   8 #define max(x, y) ((x)>(y)?(x):(y))
   9 #define min(x, y) ((x)>(y)?(y):(x))
  10 #define compare(x, y) ((x)>(y)?1:0)
  11
  12 /* Equivalent to bedGraph data structure */
  13 struct PosVal {
  14   int pos;
  15   float value;
  16 };
  17
  18 /* for comparison between two PosVal arrays */
  19 struct PosValVal {
  20   int pos;
  21   float value1;
  22   float value2;
  23 };
  24
  25 struct PosVal * single_end_pileup ( int * plus_tags, long l_plus_tags, int * minus_tags, long l_minus_tags, int five_shift, int three_shift, int leftmost_coord, int rightmost_coord,  float scale_factor, float baseline_value, long * final_length );
  26
  27 struct PosVal * quick_pileup ( int * start_poss, int * end_poss, long length_poss, float scale_factor, float baseline_value, long * final_length );
  28
  29 int cmpfunc_simple ( const void * a, const void * b);
  30
  31 int * fix_coordinates ( int * poss, long l, int leftmost_coord, int rightmost_coord );
  32
  33 struct PosVal * max_over_two_pv_array ( struct PosVal * pva1, long l_pva1, struct PosVal * pva2, long l_pva2, long * final_length );
  34
  35 struct PosVal * apply_func_two_pv_array ( float (*func)(float, float), struct PosVal * pva1, long l_pva1, struct PosVal * pva2, long l_pva2, long * final_length );
  36
  37 struct PosValVal * align_two_pv_array ( struct PosVal * pva1, long l_pva1, struct PosVal * pva2, long l_pva2, long * final_length );
  38
  39 void write_pv_array_to_bedGraph ( struct PosVal * pv_array, long l_pv_array, char * chromosome, char * bdgfile, short append );
  40
  41 long quick_pileup_simple ( int * ret_poss, float * ret_values, int * start_poss, int * end_poss, long length_poss, float scale_factor, float baseline_value );