Commit 9d01e930 authored by Mathieu Giraud's avatar Mathieu Giraud

core/segment.h: document constants

Completes a76116be.
parent 98427e9a
......@@ -46,9 +46,13 @@
be overriden by the command line by
providing a shorter -w*/
#define DEFAULT_MINIMIZE_WIDTH 12
#define DEFAULT_MINIMIZE_WIDTH 12 /* Number of nucleotides on which the minimization integer is computed */
#define DEFAULT_MINIMIZE_ONE_MARGIN 20
#define DEFAULT_MINIMIZE_ONE_MARGIN 20 /* Number of nucleotides on ends of the reads excluded from the minimization in SEG_METHOD_ONE.
- A read smaller than (DEFAULT_MINIMIZE_ONE_MARGIN*2 + max(k, DEFAULT_MINIMIZE_WIDTH)), that is 52,
will trigger UNSEG_TOO_SHORT_FOR_WINDOW.
- Margins above the half of the window length may produce shortened or shifted windows
*/
using namespace std;
......
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