inc/spacedSeed.h File Reference

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Functions
int	spacedSeedMaxWeight ()
int *	spacedSeedOffsets (int weight)
int	spacedSeedSpan (int weight)
Variables
char *	spacedSeeds []

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Function Documentation

int spacedSeedMaxWeight

(

)

Definition at line 36 of file spacedSeed.c.

References ArraySize, and spacedSeeds.

{
return ArraySize(spacedSeeds)-1;
}

int* spacedSeedOffsets

(

int

weight

)

Definition at line 42 of file spacedSeed.c.

References AllocArray, ArraySize, and spacedSeeds.

{
char *seed;
int *output, offset, outCount = 0, seedSize;

assert(weight >= 1 && weight < ArraySize(spacedSeeds));
seed = spacedSeeds[weight];
seedSize = strlen(seed);
AllocArray(output, weight);
for (offset=0; offset<seedSize; ++offset)
    {
    if (seed[offset] == '1')
        output[outCount++] = offset;
    }
assert(outCount == weight);
return output;
}

int spacedSeedSpan

(

int

weight

)

Definition at line 61 of file spacedSeed.c.

References spacedSeeds.

{
return strlen(spacedSeeds[weight]);
}

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Variable Documentation

char* spacedSeeds[]

Definition at line 12 of file spacedSeed.c.

Referenced by spacedSeedMaxWeight(), spacedSeedOffsets(), and spacedSeedSpan().

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