obitools/sumalibs
2
0
Fork 0
Code Issues Pull Requests Actions Packages Projects Releases 10 Wiki Activity

sumalibs first commit

Browse Source
This commit is contained in:
Celine Mercier
2015-07-16 14:00:12 +02:00
commit 049129488e
41 changed files with 7796 additions and 0 deletions
Download Patch File Download Diff File Expand all files Collapse all files

18
liblcs/upperband.h Normal file
View File

@ -0,0 +1,18 @@
#ifndef UPPERBAND_H_
#define UPPERBAND_H_
int buildTable(const char *sequence, unsigned char *table, int *count);
int compareTable(unsigned char *t1, int over1, unsigned char* t2, int over2);
int threshold4(int wordcount,double identity);
int thresholdLCS4(int32_t reflen,int32_t lcs);
int hashDB(fastaSeqCount);
BOOL isPossible(fastaSeqPtr, fastaSeqPtr, BOOL, int, double, BOOL);
BOOL isPossibleSumathings(fastaSeqPtr seq1, fastaSeqPtr seq2, int l1, int l2, double threshold, BOOL normalize, int reference, BOOL lcsmode);
void filters(fastaSeqPtr seq1, fastaSeqPtr seq2, double threshold, BOOL normalize, int reference, BOOL lcsmode, double* score, int* LCSmin);
void filtersSumatra(fastaSeqPtr seq1, fastaSeqPtr seq2, double threshold, BOOL normalize, int reference, BOOL lcsmode, double* score, int* LCSmin);
#endif