User contributions
29 January 2014
16 January 2014
16 December 2013
6 December 2013
Biostatistics 830: Main Page
Class Worksheets
Biostatistics 830: Main Page
Class Worksheets
+83
File:Question Sheet - Jun et al (2012) American Journal of Human Genetics.pdf
no edit summary
4 December 2013
Rvtests
Genotyep filters
RAREMETAL Documentation
Where to Download
+1
Biostatistics 830: Main Page
Class Worksheets
Biostatistics 830: Main Page
Class Worksheets
+82
File:Question Sheet - Wu et al (2011) American Journal of Human Genetics.pdf
no edit summary
26 November 2013
Biostatistics 830: Main Page
Class Worksheets
+64
File:Question Sheet - Liu et al (2013) Nature Genetics.pdf
no edit summary
25 November 2013
Biostatistics 830: Main Page
Class Worksheets
Biostatistics 830: Main Page
Class Worksheets
+93
Biostatistics 830: Main Page
Class Worksheets
+94
File:Question Sheet - Li and Durbin (2011) Nature.pdf
no edit summary
18 November 2013
Abecasis Group Awards
no edit summary
+28
Abecasis Group Awards
International Genetic Epidemiology Society
+152
12 November 2013
Biostatistics 830: Main Page
Class Worksheets
-1
Biostatistics 830: Main Page
Class Worksheets
+7
Biostatistics 830: Main Page
Class Worksheets
+60
File:Question Sheet - Iqbal et al (2012) Nature Genetics.pdf
no edit summary
7 November 2013
Biostatistics 830: Main Page
Class Worksheets
+146
File:Question Sheet - Zerbino and Birney (2008) Bioinformatics.pdf
Goncalo uploaded a new version of "File:Question Sheet - Zerbino and Birney (2008) Bioinformatics.pdf": Removed unnecessary second page.
File:Question Sheet - Li and Durbin (2009) Bioinformatics.pdf
Goncalo uploaded a new version of "File:Question Sheet - Li and Durbin (2009) Bioinformatics.pdf": Fixed typos in code example.
File:Question Sheet - Zerbino and Birney (2008) Bioinformatics.pdf
no edit summary
30 October 2013
Biostatistics 830: Main Page
Class Worksheets
+78
File:Question Sheet - Li and Durbin (2009) Bioinformatics.pdf
no edit summary
Biostatistics 830: Main Page
Class Worksheets
+24
28 October 2013
830 - MaqIndex::LookupWord()
no edit summary
+6
830 - BestAlignment::IterateCache()
Created page with "<source lang="cpp"> unsigned int BestAlignment::IterateCache(unsigned int key) { int h = (key * PRIME) % cacheSize; while (cache[h] != -1 && cache[h] ..."
Biostatistics 830 - Code Snippets
Code Snippets
+4
830 - BestAlignment::ClearCache()
Goncalo moved page 830 - BestAlignment::ClearCache() to 830 - BestAlignment::ClearPositions()
830 - BestAlignment::ClearPositions()
Goncalo moved page 830 - BestAlignment::ClearCache() to 830 - BestAlignment::ClearPositions()
m830 - BestAlignment::ClearPositions()
Created page with "<source lang="cpp"> void BestAlignment::ClearPositions() { cacheItems = 0; for (int i = 0; i < cacheSize; i++) cache[i] = -1; } </source>"
830 - BestAlignment::isNewPosition()
Created page with "<source lang="cpp"> bool BestAlignment::isNewPosition(unsigned int pos) { int h = IterateCache(pos); if (cache[h] == pos) return false; cache[h] = pos; cacheItems++; ..."
Biostatistics 830 - Code Snippets
Code Snippets
+122
830 - BestAlignment::EvaluateAlignment() (detailed comparison)
no edit summary
+32
830 - BestAlignment::EvaluateAlignment() (detailed comparison)
Created page with "void BestAlignment::EvaluateAlignment(String & reference, FastQ & read, unsigned int pos, bool fwd) { if (pos < 0 || read.Length() + pos > reference.Length()) return; if ..."
830 - BestAlignment::EvaluateAlignment() (main loop)
Created page with "<source lang="cpp"> void BestAlignment::EvaluateAlignment(MaqIndex & index, FastQ & read, unsigned int offset, bool fwd) { unsigned int start, stop; index.LookupWord(read...."
830 - BestAlignment::MaqAlignment()
no edit summary
+32
830 - BestAlignment::MaqAlignment()
Created page with "void BestAlignment::MaqAlignment(MaqIndex & index1, MaqIndex & index2, MaqIndex & index3, FastQ & read) { position = -1; sumQ = mapQ = 0; mismatches = read.Length(); forwa..."
Biostatistics 830 - Code Snippets
Code Snippets
+167
830 - MaqIndex::GetWord()
Created page with "<source lang="cpp"> long long MaqIndex::GetWord(String & sequence, unsigned int position) { long long word = 0; if (position + mask.Length() > sequence.Length()) return -..."
830 - MaqIndex::BuildIndex()
Created page with "<source lang="cpp"> void MaqIndex::BuildIndex() { // This function could use quite a lot of memory ... // 4 bytes per word // 4 bytes per position // 4 bytes per ..."
830 - MaqIndex::LookupWord()
Created page with "<source lang="cpp"> bool MaqIndex::LookupWord(String & sequence, int offset, unsigned int & firstOccurrence, unsigned int & lastOccurrence) { firstOccurrence = 0; lastOccurr..."
830 - MaqIndex::CompareToIndex()
no edit summary
-2
