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Jump to navigationJump to search- 11:31, 21 January 2010 diff hist +108 Main Page →Miscellaneous Utilities
- 11:29, 21 January 2010 diff hist +2 Read Mapping
- 11:28, 21 January 2010 diff hist +505 N Read Mapping Created page with '== Read mappers that we like are == [http://bio-bwa.sourceforge.net BWA] - A much faster aligner developed by Richard Durbin and Heng Li. Karma - Currently under development…'
- 11:23, 21 January 2010 diff hist +4 Main Page →Read Mapping
- 09:37, 21 January 2010 diff hist +49 N File:666.04.pdf Introduction to the Coalescent. January 21, 2010
- 04:23, 19 January 2010 diff hist 0 File:666.03.pdf uploaded a new version of "File:666.03.pdf": Introduction to Linkage Disequilibrium. Further tweaks as of January 19, 2010. The lecture is presently too long and should be split into two.
- 03:13, 19 January 2010 diff hist 0 File:666.03.pdf uploaded a new version of "File:666.03.pdf": Updated Lecture Notes, as of January 19, 2010.
- 01:44, 19 January 2010 diff hist +412 N Biostatistics 666: Introduction to the Coalescent Created page with '== Objective == Introduce the coalescent as a practical means to model the properties of alleles in a population. == Slides == Slides in PDF Format == Ba…'
- 01:37, 19 January 2010 diff hist +82 Biostatistics 666: Main Page →Class Notes
- 08:44, 14 January 2010 diff hist +95 N File:666.03.pdf Introduces Measures of Linkage Disequibrium and Related Concepts Last updated January 14, 2010
- 07:56, 14 January 2010 diff hist +311 Biostatistics 666: Linkage Disequilibrium →Objective
- 07:54, 14 January 2010 diff hist +840 N Biostatistics 666: Linkage Disequilibrium Created page with '== Objective == == Slides == Slides in PDF Format == Background Reading == Dawson E, Abecasis GR, Bumpstead S, Chen Y, Hunt S, Beare DM, Pabial J, Diblin…'
- 07:37, 14 January 2010 diff hist +74 Biostatistics 666: Main Page →Class Notes
- 10:55, 13 January 2010 diff hist +493 FastQValidator
- 10:52, 13 January 2010 diff hist 0 Main Page →Miscellaneous Utilities
- 10:52, 13 January 2010 diff hist +29 N FastQ validator moved FastQ validator to FastQ Validator current
- 10:52, 13 January 2010 diff hist 0 m FastQValidator moved FastQ validator to FastQ Validator
- 10:51, 13 January 2010 diff hist 0 Main Page →Miscellaneous Utilities
- 10:50, 13 January 2010 diff hist +108 Main Page →Sequence Analysis Tools
- 10:44, 13 January 2010 diff hist +44 FastQValidator
- 02:49, 12 January 2010 diff hist +22 Biostatistics 666: Hardy-Weinberg Equilibrium →Objective
- 02:49, 12 January 2010 diff hist +451 Biostatistics 666: Hardy-Weinberg Equilibrium
- 02:45, 12 January 2010 diff hist +19 Biostatistics 666: Hardy-Weinberg Equilibrium →Slides
- 02:44, 12 January 2010 diff hist +2 Biostatistics 666: Main Page →Class Notes
- 02:44, 12 January 2010 diff hist -1 Biostatistics 666: Main Page →Class Notes
- 02:44, 12 January 2010 diff hist -2 Biostatistics 666: Main Page →Class Notes
- 02:44, 12 January 2010 diff hist +28 Biostatistics 666: Main Page →Class Notes
- 02:43, 12 January 2010 diff hist +55 N File:666.02.pdf Lecture on Hardy Weinberg Equilibrium January 12, 2009
- 11:28, 7 January 2010 diff hist +6 Biostatistics 666: Main Page →Office Hours
- 10:05, 7 January 2010 diff hist +54 Biostatistics 666: Main Page
- 00:40, 7 January 2010 diff hist +27 Biostatistics 666: Main Page →Class Notes
- 00:38, 7 January 2010 diff hist +1 Biostatistics 666: Introductory Lecture →Slides
- 00:28, 7 January 2010 diff hist +42 Biostatistics 666: Introductory Lecture →Slides
- 00:26, 7 January 2010 diff hist +56 N File:666.01.pdf Biostatistics 666 Introductory Lecture as of 2010/01/06.
- 00:25, 7 January 2010 diff hist +899 Biostatistics 666: Main Page
- 23:54, 6 January 2010 diff hist +41 Biostatistics 666: Hardy-Weinberg Equilibrium
- 23:53, 6 January 2010 diff hist +300 N Biostatistics 666: Introductory Lecture Created page with '== Objective == This lecture introduces course objectives, which are to provide students with a working understanding of the techniques commonly used by statistical geneticists.…'
- 23:50, 6 January 2010 diff hist +195 N Biostatistics 666: Hardy-Weinberg Equilibrium Created page with '== Background Reading == Please read the following paper: Wigginton JE, Cutler DJ and Abecasis GR (2005). A note on exact tests of Hardy-Weinberg equilibrium. ''Am J Hum Genet'…'
- 23:48, 6 January 2010 diff hist +51 Biostatistics 666: Main Page →Class Notes
- 23:47, 6 January 2010 diff hist +42 N 666 Redirected page to Biostatistics 666: Main Page current
- 23:45, 6 January 2010 diff hist +397 Biostatistics 666: Main Page
- 23:42, 6 January 2010 diff hist +45 Biostatistics 666: Main Page →Class Notes
- 23:41, 6 January 2010 diff hist +765 N Biostatistics 666: Main Page Created page with '== Objective == Gene mapping studies aim to study the relationship between genetic variation and susceptibility to human disease. These studies can be used to elucidate the bioc…'
- 23:39, 6 January 2010 diff hist -28 Class Notes
- 23:35, 6 January 2010 diff hist +263 Class Notes
- 23:31, 6 January 2010 diff hist +15 Class Notes →BIOSTAT 666 Statistical and Numerical Methods in Human Genetics
- 23:31, 6 January 2010 diff hist +537 N Class Notes Created page with '== BIOSTAT 666 Statistical and Numerical Methods in Human Genetics == Gene mapping studies aim to study the relationship between genetic variation and suscepti…'
- 23:30, 6 January 2010 diff hist -576 Main Page →Learn Genetics
- 23:28, 6 January 2010 diff hist +743 Main Page
- 02:52, 19 December 2009 diff hist +34 SAM
- 02:51, 19 December 2009 diff hist +76 BAM
- 02:50, 19 December 2009 diff hist +237 N SAM Created page with 'The '''SAM Format''' is a text format for storing aligned reads. The current definition of the format is at http://samtools.sourceforge.net/SAM1.pdf BAM/SAM Specification. …'
- 02:48, 19 December 2009 diff hist +670 Mapping Quality Scores
- 11:53, 18 December 2009 diff hist +147 GLF →Tools That Use GLF Files
- 19:05, 17 December 2009 diff hist -5 CHARGE →Reference current
- 19:05, 17 December 2009 diff hist +88 CHARGE
- 18:40, 17 December 2009 diff hist +44 Main Page →Read Mapping
- 18:38, 17 December 2009 diff hist +172 Mapping Quality Scores
- 18:34, 17 December 2009 diff hist +743 N Mapping Quality Scores Created page with ''''Mapping Quality Scores''' quantify the probability that a read is misplaced. They were introduced by Heng Li and Richard Durbin in their paper describing MAQ and are usually r…'
- 15:00, 15 December 2009 diff hist +262 N CHARGE Created page with ''''CHARGE''' is a consortium of several population based cohorts. The acronym stands for Cohorts for Health and Aging Related Genetic Epidemiology. == Participating Cohorts == …'
- 14:46, 15 December 2009 diff hist +46 N GWAS Created page with ''''GWAS''' are genomewide association studies.'
- 15:55, 14 December 2009 diff hist -2 Main Page
- 14:38, 14 December 2009 diff hist +179 N BAM Created page with 'The '''BAM Format''' is a binary format for storing aligned reads. The current definition of the format is at http://samtools.sourceforge.net/SAM1.pdf BAM/SAM Specification…'
- 13:12, 14 December 2009 diff hist +117 N Talk:Examples of Read Mapping with Karma and BWA Created page with 'We need a much more informative title for this page. Also, it needs to linked (in some sensible way) to other pages.'
- 12:37, 14 December 2009 diff hist +1 Examples of Read Mapping with Karma and BWA
- 12:37, 14 December 2009 diff hist +13 Examples of Read Mapping with Karma and BWA
- 12:36, 14 December 2009 diff hist -2 Examples of Read Mapping with Karma and BWA
- 12:36, 14 December 2009 diff hist -6 Examples of Read Mapping with Karma and BWA
- 12:35, 14 December 2009 diff hist +4 SardiNIA →Key References
- 12:35, 14 December 2009 diff hist +142 SardiNIA
- 12:34, 14 December 2009 diff hist +199 SardiNIA
- 12:32, 14 December 2009 diff hist +76 Main Page
- 12:32, 14 December 2009 diff hist +16 SardiNIA →Medical Sequencing Project
- 12:31, 14 December 2009 diff hist +65 SardiNIA
- 12:30, 14 December 2009 diff hist +992 N SardiNIA Created page with '== Key References == If you are looking to learn about the project, I strongly recommend that you read the following papers Pilia G, Chen WM, Scuteri A, Orru M, Albai G, Dei …'
- 15:09, 8 December 2009 diff hist +770 Mantra.cpp current
- 15:02, 8 December 2009 diff hist +1,800 N Mantra.cpp New page: '''Mantra.cpp''' provides useful functions handling inheritance vectors. A call to Mantra::Prepare() will first list all the meioses in a pedigree (which constitute an inheritance vect...
- 03:32, 26 November 2009 diff hist +53 N Utility Library Created page with ' Parameters.h StringHash.h StringMap.h' current
- 03:31, 26 November 2009 diff hist +12 StringMap.h current
- 03:30, 26 November 2009 diff hist +345 N StringMap.h Created page with ''''StringMap.h''' declares classes that allow one to store a list of strings and associated items. The list is stored in sorted fashion. Inserts and deletes can be quite expensiv…'
- 03:26, 26 November 2009 diff hist +224 Parameters.h current
- 03:22, 26 November 2009 diff hist +854 N Parameters.h Created page with '''Parameters.h'' is a header file that defines a series of classes that are useful for processing command line parameters. == Example Usage == <source lang="cpp"> #include "…'
- 11:30, 24 November 2009 diff hist -40 BamGenotypeCheck
- 11:29, 24 November 2009 diff hist +30 N Lanecheck moved Lanecheck to BamIdentityCheck: renamed lane check to bamIdentityCheck which is more descriptive current
- 11:29, 24 November 2009 diff hist 0 m BamGenotypeCheck moved Lanecheck to BamIdentityCheck: renamed lane check to bamIdentityCheck which is more descriptive
- 11:28, 24 November 2009 diff hist -23 TrioCaller Blanked the page
- 14:21, 20 November 2009 diff hist -9 Karma-colorspace →Additional Information
- 14:20, 20 November 2009 diff hist -30 Karma-colorspace
- 14:19, 20 November 2009 diff hist -31 Karma-colorspace →Build Binary Reference Genome and Word Index
- 22:37, 19 November 2009 diff hist +47 Karma
- 17:28, 19 November 2009 diff hist -22 VcfCodingSnps
- 17:27, 19 November 2009 diff hist +90 Main Page →Sequence Analysis Tools
- 17:17, 19 November 2009 diff hist 0 m VcfCodingSnps moved AnnoVcf to VcfCodingSnps: Better name
- 10:06, 18 November 2009 diff hist +64 FastQValidator →Valid FastQ File Requirements
- 10:05, 18 November 2009 diff hist +98 FastQValidator →Valid FastQ File Requirements
- 23:30, 16 November 2009 diff hist +573 N FastQValidator Created page with '== Status == The FastQ Validator is on our Todo List. == Valid FastQ File Requirements == A valid fastQ file should meet the following requirements: * A base sequence sho…'
- 10:43, 16 November 2009 diff hist -1 Karma-colorspace →Input file requirement
- 10:43, 16 November 2009 diff hist -38 Karma-colorspace →Input file requirement
- 10:40, 16 November 2009 diff hist +6 Main Page →Welcome!
- 10:38, 16 November 2009 diff hist +233 Main Page →Welcome!