ngiden2distance.cpp File Reference

#include <iostream>
#include <string>
#include <fstream>
#include "Evolution.h"
#include <map>
#include <vector>
#include <cstring>
#include <cstdlib>

Functions
void	usage ()
int	main (int argc, char *argv[])

---

Function Documentation

int main	(	int	argc,
		char *	argv[]
	)

References GrishinDistance(), ifstream(), and usage.

void usage

(

)

Input file: ngiden.tab format +----------+----------+------------+ | db1 | db2 | avgngiden | +----------+----------+------------+ | Aspni1 | Aspni1 | 0.42651027 | | Aspni1 | Batde5 | 0.37095312 | | Aspni1 | Lacbi1 | 0.38920021 | ...

I will generate file format suitable for bionj

The input file must have header.

The input could be a full matrix or one half of (triangle) if the matrix is symmetric.

given gmap summary format, this program converts it into combest archive format (*.car)

It can be used a pipe, or given specific file names.

this is a helper program to count distinct estids in the ESTId column of the combest result. So it is the actual number of ESTs mapped. This could be lower for deeply covered genome because of the coverage depth-dependent filtering.

given gmap summary format, this program converts it into combest archive format (*.car)

It can be used a pipe, or given specific file names.

this is a helper program to count distinct estids in the ESTId column of the combest result. So it is the actual number of ESTs mapped. This could be lower for deeply covered genome because of the coverage depth-dependent filtering.