User contributions
28 October 2013
830 - MaqIndex::CompareToIndex()
Created page with "<source lang="cpp"> int MaqIndex::CompareToIndex(String & sequence, unsigned int offset, unsigned int index) { index = sortedPositions[index]; for (unsigned int i = 0; i <..."
Biostatistics 830 - Code Snippets
Code Snippets
+137
830 - BasicMapper::main()
Created page with "<source lang="cpp"> int main(int argc, char ** argv) { // Record start time for this run time_t start = time(NULL); // This function summarizes available options and proc..."
Biostatistics 830 - Code Snippets
Howie et al (2012) Nat Genet
+266
Biostatistics 830: Main Page
Required Reading
+54
25 October 2013
14 October 2013
11 October 2013
Biostatistics 830: Main Page
Class Worksheets
+93
File:Question Sheet - Li et al (2008) Genome Research.pdf
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3 October 2013
RAREMETAL-SOFTWARE
Goncalo moved page RAREMETAL-SOFTWARE to Rare Variant Analysis and Meta-Analysis
Rare Variant Analysis and Meta-Analysis
Goncalo moved page RAREMETAL-SOFTWARE to Rare Variant Analysis and Meta-Analysis
m
2 October 2013
830 - Haplotyper::ImputeGenotypes() (edge)
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830 - Haplotyper::ImputeGenotypes() (internal)
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830 - Haplotyper::SampleOneHaplotype()
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830 - Haplotyper::SummarizeOptions()
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-1
830 - MINIMAC::main()
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830 - MINIMAC::main()
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830 - MINIMAC::main()
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830 - MINIMAC::main()
Created page with "</source lang="cpp"> int main(int argc, char ** argv) { time_t start = time(NULL); printf("MiniMac - Imputation into phased haplotypes\n" "(c) 2010-2011 Goncalo..."
Biostatistics 830 - Code Snippets
Code Snippets
+27
Biostatistics 830 - Code Snippets
Code Snippets
+15
830 - Haplotyper::ScoreLeftConditional smart()
Goncalo moved page 830 - Haplotyper::ScoreLeftConditional smart() to 830 - Haplotyper::ScoreLeftConditional() (smart, complicated): Consistency.
830 - Haplotyper::ScoreLeftConditional() (smart, complicated)
Goncalo moved page 830 - Haplotyper::ScoreLeftConditional smart() to 830 - Haplotyper::ScoreLeftConditional() (smart, complicated): Consistency.
m830 - Haplotyper::ImputeGenotypes() (internal)
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830 - Haplotyper::ImputeGenotypes() (internal)
Created page with "void Haplotyper::ImputeGenotypes(float * matrix1, float * matrix2, int marker) { posterior[0][marker] = posterior[1][marker] = posterior[2][marker] = 0.0; for (int i..."
830 - Haplotyper::ImputeGenotypes() (edge)
Created page with "<source lang="cpp"> void Haplotyper::ImputeGenotypes(float * matrix, int marker) { posterior[0][marker] = posterior[1][marker] = posterior[2][marker] = 0.0; for (in..."
Biostatistics 830 - Code Snippets
Code Snippets
+100
830 - Haplotyper::ImputeGenotypes()
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830 - Haplotyper::SampleOneHaplotype()
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830 - Haplotyper::SampleOneHaplotype()
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830 - Haplotyper::SampleOneHaplotype()
Created page with "<source lang="cpp"> float Haplotyper::SampleOneHaplotype(float * vector, double first, double & second, float & choice) { for (second = 0; second < states; second++) ..."
Biostatistics 830 - Code Snippets
Code Snippets
+44
830 - Haplotyper::SummarizeOptions()
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830 - Haplotyper::SummarizeOptions()
Created page with "<code lang="cpp"> float Haplotyper::SummarizeOptions(float * vector, float ** left, float ** right, float theta, int first, int second) { right[0][0] = (1. - theta) * (..."
Biostatistics 830 - Code Snippets
Code Snippets
+42
830 - Haplotyper::SampleChromosomes()
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+30
830 - Haplotyper::SampleChromosomes()
Created page with " void Haplotyper::SampleChromosomes(Random * rand) { RewindMemoryPool(); RetrieveMemoryBlock(markers - 1); int first = 0, second = 0; SampleHaplotypes(leftMat..."
830 - Haplotyper::SampleHaplotypes()
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830 - Haplotyper::SampleHaplotypes()
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Biostatistics 830 - Code Snippets
Code Snippets
+43
830 - Haplotyper::SampleHaplotypes()
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830 - Haplotyper::SampleHaplotypes()
Created page with "<source lang="cpp"> void Haplotyper::SampleChromosomes(Random * rand) { RewindMemoryPool(); RetrieveMemoryBlock(markers - 1); int first = 0, second = 0; Sampl..."
Biostatistics 830 - Code Snippets
Code Snippets
+42
830 - Haplotyper::ScoreLeftConditional()
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830 - Haplotyper::ScoreLeftConditional()
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830 - Haplotyper::ScoreLeftConditional() (smart, complicated)
Created page with "<source lang="cpp"> // This version of the ScoreLeftConditional() function deals with sites // where no genotypes are observed a little more efficiently. // void Haplotyper:..."
Biostatistics 830 - Code Snippets
Code Snippets
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