User contributions
20 January 2012
7 December 2011
File:666.24.pdf
Introduction to likelihood calculations in large pedigrees and the Elston Stewart algorithm.
Biostatistics 666: Likelihood Calculations for Large Pedigrees
Created page with '== Outline == This lecture introduces an alternative formulation of the pedigree likelihood, that does not rely on summation over IBD states. The lecture also introduces the Els…'
Biostatistics 666: Main Page
Class Notes
+95
File:666.2011.01.pdf
uploaded a new version of "File:666.2011.01.pdf": Corrected small typos.
File:666.2011.02.pdf
uploaded a new version of "File:666.2011.02.pdf": Corrected small typos.
5 December 2011
Biostatistics 666: Analysis of Copy Number Using Sequence Data
Recommended Reading
+5
File:666.2011.02.pdf
Copy Number Variation Analysis Using Sequence Data
Biostatistics 666: Analysis of Copy Number Using Sequence Data
Created page with '== Overview == Introduces the analysis of copy number variation using next generation sequence data, discussing the types of evidence that can be observed in one individual and …'
Biostatistics 666: Main Page
Class Notes
+100
30 November 2011
Biostatistics 666: Rare Variant Burden Tests
Recommended Reading
+2
Biostatistics 666: Rare Variant Burden Tests
Created page with '== Objective == Discussion of the challenges involved in the analysis of rare variation. Introduces basic burden tests, discusses the benefits of different variant weighting sch…'
Biostatistics 666: Main Page
Class Notes
+82
File:666.2011.01.pdf
Introduction to Rare Variant Burden Tests and Related Issues.
28 November 2011
File:666.2010.05.pdf
uploaded a new version of "File:666.2010.05.pdf": Added Sardinia example and discussion of consensus genotype calling.
File:666.2010.03.pdf
uploaded a new version of "File:666.2010.03.pdf": Fixes several small typos in worked imputation examples.
23 November 2011
21 November 2011
File:666.17.pdf
uploaded a new version of "File:666.17.pdf": Minor updates to figures.
File:666.16.pdf
uploaded a new version of "File:666.16.pdf": Minor updates to figures.
File:666.2010.03.pdf
uploaded a new version of "File:666.2010.03.pdf": Minor cosmetic updates.
16 November 2011
File:666.20.pdf
uploaded a new version of "File:666.20.pdf": This version removes page numbers (a visual nuisance) and adds a mention of approaches that use empirical, rather than pedigree based, kinship coefficients.
File:666.20.pdf
uploaded a new version of "File:666.20.pdf"
9 November 2011
7 November 2011
Exome Chip Design
Grunt Work
+76
File:666.2010.02.pdf
uploaded a new version of "File:666.2010.02.pdf": Simplified lecture to make it fit more easily into one hour.
3 November 2011
MediaWiki:Common.css
no edit summary
+31
Code Sample: Generating QQ Plots in R
Sample Usage
+185
Code Sample: Generating QQ Plots in R
R Lattice Graphics
+66
MediaWiki:Common.css
Created page with 'CSS placed here will be applied to all skins: Copied verbatim from en.wikipedia.org/wiki/MediaWiki:Common.css: #interwiki-completelist { font-weight: bold; } bod…'
2 November 2011
1 November 2011
Code Sample: Generating QQ Plots in R
no edit summary
+7
MediaWiki:Geshi.css
Created page with 'CSS placed here will be applied to GeSHi syntax highlighting: div.mw-geshi div, pre { padding: 1em; margin: 1em 0; border: 1px dashed #2f6fab; font-family: monospa…'
31 October 2011
Code Sample: Generating QQ Plots in R
Created page with 'Quantile-quantile plots (qq-plots) can be useful for verifying that a set of values come from a certain distribution. For example in a genome-wide association study, we expect th…'
File:Pval-qq-sample.png
Sample QQ Plot
28 October 2011
Biostatistics 666: Main Page
Problem Set Solutions
+69
Biostatistics 666: Main Page
Office Hours
+29
Biostatistics 666: Main Page
Office Hours
+34
Biostatistics 666: Main Page
Scheduling
-76
User talk:Clement Ma
Welcome!
mUser:Clement Ma
Creating user page with biography of new user.
m
24 October 2011
18 October 2011
Talk:Minimac: 1000 Genomes Imputation Cookbook
Created page with 'Issues to resolve: * No --prefix in MACH example command line (both for single job and in parallel) * Should make sure MACH output is gzipped (I think Yun has enabled this by de…'
IMPUTE2: 1000 Genomes Imputation Cookbook
Imputation
10 October 2011
Exome Chip Design
Online Content
-1
Exome Chip Design
Online Content
+314
Exome Chip Design
Online Content
-2
Exome Chip Design
Online Content
Exome Chip Design
Online Content
+33
Exome Chip Design
Online Content
