Search Toolkit Book for NeighborInfo
Structure containing information needed for adding neighboring words. More...
Collaboration diagram for NeighborInfo:
Public Attributes | |
| BlastAaLookupTable * | lookup |
| Lookup table. More... | |
| Uint1 * | query_word |
| the word whose neighbors we are computing More... | |
| Uint1 * | subject_word |
| the computed neighboring word More... | |
| Int4 | alphabet_size |
| number of letters in the alphabet More... | |
| Int4 | wordsize |
| number of residues in a word More... | |
| Int4 | charsize |
| number of bits in a residue More... | |
| Int4 ** | matrix |
| the substitution matrix More... | |
| Int4 * | row_max |
| maximum possible score for each row of the matrix More... | |
| Int4 * | offset_list |
| list of offsets where the word occurs in the query More... | |
| Int4 | threshold |
| the score threshold for neighboring words More... | |
| Int4 | query_bias |
| bias all stored offsets for multiple queries More... | |
Detailed Description
Structure containing information needed for adding neighboring words.
Definition at line 36 of file blast_aalookup.c.
Member Data Documentation
◆ alphabet_size
| Int4 NeighborInfo::alphabet_size |
number of letters in the alphabet
Definition at line 40 of file blast_aalookup.c.
◆ charsize
| Int4 NeighborInfo::charsize |
number of bits in a residue
Definition at line 42 of file blast_aalookup.c.
◆ lookup
| BlastAaLookupTable* NeighborInfo::lookup |
Lookup table.
Definition at line 37 of file blast_aalookup.c.
◆ matrix
| Int4** NeighborInfo::matrix |
the substitution matrix
Definition at line 43 of file blast_aalookup.c.
◆ offset_list
| Int4* NeighborInfo::offset_list |
list of offsets where the word occurs in the query
Definition at line 45 of file blast_aalookup.c.
◆ query_bias
| Int4 NeighborInfo::query_bias |
bias all stored offsets for multiple queries
Definition at line 47 of file blast_aalookup.c.
◆ query_word
| Uint1* NeighborInfo::query_word |
the word whose neighbors we are computing
Definition at line 38 of file blast_aalookup.c.
◆ row_max
| Int4* NeighborInfo::row_max |
maximum possible score for each row of the matrix
Definition at line 44 of file blast_aalookup.c.
◆ subject_word
| Uint1* NeighborInfo::subject_word |
the computed neighboring word
Definition at line 39 of file blast_aalookup.c.
◆ threshold
| Int4 NeighborInfo::threshold |
the score threshold for neighboring words
Definition at line 46 of file blast_aalookup.c.
◆ wordsize
| Int4 NeighborInfo::wordsize |
number of residues in a word
Definition at line 41 of file blast_aalookup.c.
The documentation for this struct was generated from the following file:
- src/algo/blast/core/blast_aalookup.c
