User contributions
From Genome Analysis Wiki
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- 22:12, 5 February 2013 (diff | hist) . . (+122) . . Mach2dat: Association with MACH output (current)
- 07:56, 16 May 2012 (diff | hist) . . (+296) . . Thunder
- 16:13, 24 April 2012 (diff | hist) . . (+12) . . MaCH FAQ (→MaCH-Admix)
- 16:12, 24 April 2012 (diff | hist) . . (+20) . . MaCH FAQ (→MaCH-Admix)
- 15:59, 27 March 2012 (diff | hist) . . (-4) . . MaCH FAQ (→MaCH-Admix)
- 15:58, 27 March 2012 (diff | hist) . . (-2) . . MaCH FAQ (→MaCH-Admix)
- 16:58, 23 February 2012 (diff | hist) . . (0) . . Thunder
- 16:57, 23 February 2012 (diff | hist) . . (-1) . . Thunder (→Input Data)
- 07:31, 2 February 2012 (diff | hist) . . (-2) . . Thunder (→(step 2) Genotype/haplotype calling using thunder thunder_glf_freq)
- 07:31, 2 February 2012 (diff | hist) . . (+17) . . Thunder (→(step 2) Genotype/haplotype calling using thunder thunder_glf_freq)
- 17:38, 15 January 2012 (diff | hist) . . (-2) . . MaCH FAQ (→How do I get reference files for an region of interest?)
- 17:38, 15 January 2012 (diff | hist) . . (+344) . . MaCH FAQ (→How do I get reference files for an region of interest?)
- 17:38, 13 January 2012 (diff | hist) . . (+7) . . MaCH FAQ (→MaCH-Admix)
- 17:37, 13 January 2012 (diff | hist) . . (+14) . . MaCH FAQ (→MaCH-Admix)
- 17:37, 13 January 2012 (diff | hist) . . (+50) . . MaCH FAQ (→MaCH-Admix)
- 17:36, 13 January 2012 (diff | hist) . . (+428) . . MaCH FAQ (→minimac)
- 16:58, 29 November 2011 (diff | hist) . . (+11) . . MaCH FAQ (→minimac)
- 08:24, 17 November 2011 (diff | hist) . . (+124) . . MaCH FAQ (→How do I get reference files for an region of interest?)
- 08:23, 17 November 2011 (diff | hist) . . (+38) . . MaCH FAQ (→How do I get reference files for an region of interest?)
- 15:27, 7 November 2011 (diff | hist) . . (0) . . Mach DAC
- 11:20, 3 November 2011 (diff | hist) . . (+108) . . Thunder
- 11:18, 3 November 2011 (diff | hist) . . (+48) . . Thunder
- 20:15, 4 August 2011 (diff | hist) . . (+2) . . MaCH FAQ (→How do I get reference files for an region of interest?)
- 21:22, 29 July 2011 (diff | hist) . . (-117) . . MaCH FAQ (→Do I always have to sort the pedigree file by marker position?)
- 21:21, 29 July 2011 (diff | hist) . . (+166) . . MaCH FAQ (→How do I get reference files for an region of interest?)
- 15:29, 11 July 2011 (diff | hist) . . (+111) . . Thunder
- 19:07, 19 June 2011 (diff | hist) . . (+201) . . Thunder
- 12:01, 6 June 2011 (diff | hist) . . (+1,391) . . MaCH FAQ (→minimac)
- 20:30, 15 February 2011 (diff | hist) . . (-12) . . MaCH FAQ (→How do I get imputation quality estimates?)
- 14:22, 10 February 2011 (diff | hist) . . (+567) . . Mach DAC (→Split Your Data)
- 06:55, 10 February 2011 (diff | hist) . . (+347) . . Minimac
- 08:43, 8 February 2011 (diff | hist) . . (+28) . . Thunder (→Important Filters)
- 08:41, 8 February 2011 (diff | hist) . . (+39) . . Thunder (→flanking sequence filter)
- 08:38, 8 February 2011 (diff | hist) . . (+166) . . Thunder (→Important Filters)
- 08:37, 8 February 2011 (diff | hist) . . (0) . . Thunder (→total depth filter)
- 08:36, 8 February 2011 (diff | hist) . . (+92) . . Thunder
- 07:01, 28 January 2011 (diff | hist) . . (+589) . . CalcMatch
- 12:53, 15 January 2011 (diff | hist) . . (0) . . MaCH FAQ
- 12:51, 15 January 2011 (diff | hist) . . (+136) . . MaCH FAQ
- 18:04, 11 January 2011 (diff | hist) . . (+74) . . CalcMatch
- 08:53, 9 January 2011 (diff | hist) . . (0) . . Thunder
- 08:53, 9 January 2011 (diff | hist) . . (0) . . Thunder
- 09:29, 7 December 2010 (diff | hist) . . (+93) . . Mach DAC
- 09:27, 7 December 2010 (diff | hist) . . (+10) . . Mach DAC (→Post Phasing/Imputation Ligation)
- 09:27, 7 December 2010 (diff | hist) . . (+94) . . Mach DAC
- 09:19, 7 December 2010 (diff | hist) . . (+2,735) . . N SplitRef (Created page with 'This page documents the splitRef program, which splits a reference haplotype file into smaller files with subsets of markers. == Input Files == === Required Input Files === ====…')
- 09:18, 5 December 2010 (diff | hist) . . (+99) . . MaCH FAQ (→How do I get reference files for an region of interest?)
- 16:18, 29 November 2010 (diff | hist) . . (-95) . . Mach DAC
- 15:33, 29 November 2010 (diff | hist) . . (+414) . . Mach DAC
- 14:52, 29 November 2010 (diff | hist) . . (+109) . . Mach DAC
- 14:42, 29 November 2010 (diff | hist) . . (+181) . . SplitPed (→Example Commands)
- 14:40, 29 November 2010 (diff | hist) . . (+123) . . SplitPed
- 14:39, 29 November 2010 (diff | hist) . . (+140) . . SplitPed (→Example Commands)
- 14:36, 29 November 2010 (diff | hist) . . (+781) . . SplitPed
- 14:28, 29 November 2010 (diff | hist) . . (+2,398) . . N SplitPed (Created page with 'This page documents the splitPed program, which splits a pedigree file into smaller files with subsets of markers. == Input Files == === Required Input Files === ==== Pedigree f…')
- 12:50, 29 November 2010 (diff | hist) . . (+660) . . Mach DAC
- 08:29, 29 November 2010 (diff | hist) . . (+437) . . MaCH: machX
- 08:27, 29 November 2010 (diff | hist) . . (+74) . . Thunder
- 08:22, 29 November 2010 (diff | hist) . . (+140) . . MaCH FAQ
- 21:13, 28 November 2010 (diff | hist) . . (+4) . . MaCH FAQ (→Why and how to perform a 2-step imputation?)
- 21:12, 28 November 2010 (diff | hist) . . (+167) . . N Mach DAC (Created page with 'This is the MaCH Divide and Conquer page, documenting how to break the genome into smaller pieces before imputation/phasing and how to ligate after imputation/phasing.')
- 21:10, 28 November 2010 (diff | hist) . . (+642) . . MaCH FAQ
- 21:05, 28 November 2010 (diff | hist) . . (-1) . . MaCH FAQ (→Why and how to perform a 2-step imputation?)
- 21:04, 28 November 2010 (diff | hist) . . (+59) . . MaCH FAQ (→Why and how to perform a 2-step imputation?)
- 09:49, 26 November 2010 (diff | hist) . . (+281) . . MaCH: machX (→Impute)
- 09:47, 26 November 2010 (diff | hist) . . (+260) . . MaCH: machX (→Phase Your Own Data)
- 09:44, 26 November 2010 (diff | hist) . . (-11) . . MaCH: machX (→Reference Haplotypes)
- 09:44, 26 November 2010 (diff | hist) . . (+12) . . MaCH: machX
- 09:43, 26 November 2010 (diff | hist) . . (+12) . . MaCH: machX
- 09:42, 26 November 2010 (diff | hist) . . (-1) . . MaCH: machX
- 09:41, 26 November 2010 (diff | hist) . . (0) . . MaCH: machX
- 09:40, 26 November 2010 (diff | hist) . . (+1,018) . . N MaCH: machX (Created page with 'This page documents how to perform X chromosome (non-pseudo-autosomal part) imputation using MaCH [http://www.sph.umich.edu/csg/yli/mach] and minimac [http://genome.sph.umich.edu…')
- 08:34, 26 November 2010 (diff | hist) . . (0) . . MaCH (current)
- 08:33, 26 November 2010 (diff | hist) . . (+42) . . MaCH
- 07:17, 24 November 2010 (diff | hist) . . (+5) . . MaCH FAQ (→How do I get reference files for an region of interest?)
- 16:36, 19 November 2010 (diff | hist) . . (+33) . . MaCH FAQ (→How long does imputation take?)
- 18:22, 21 October 2010 (diff | hist) . . (+1) . . Haploxt (→--r2Threshold or -t) (current)
- 18:22, 21 October 2010 (diff | hist) . . (+34) . . Haploxt
- 18:20, 21 October 2010 (diff | hist) . . (+307) . . Haploxt (→download)
- 18:11, 21 October 2010 (diff | hist) . . (-1) . . Haploxt (→.freq)
- 18:10, 21 October 2010 (diff | hist) . . (+516) . . Haploxt
- 18:05, 21 October 2010 (diff | hist) . . (-2,290) . . Haploxt
- 13:31, 21 October 2010 (diff | hist) . . (+369) . . Haploxt
- 09:57, 21 October 2010 (diff | hist) . . (+35) . . Haploxt
- 09:56, 21 October 2010 (diff | hist) . . (+857) . . Haploxt
- 09:52, 21 October 2010 (diff | hist) . . (+4,021) . . N Haploxt (Created page with 'haploxt is a C/C++ software developed by [https://www.sph.umich.edu/csg/yli/ Yun Li] and [https://www.sph.umich.edu/csg/abecasis/ Goncalo Abecasis]. It calculates LD (D' and r<su…')
- 09:34, 21 October 2010 (diff | hist) . . (+37) . . CalcMatch
- 16:04, 15 October 2010 (diff | hist) . . (+12) . . Thunder
- 15:59, 15 October 2010 (diff | hist) . . (+198) . . Thunder
- 15:56, 15 October 2010 (diff | hist) . . (+60) . . Thunder
- 15:56, 15 October 2010 (diff | hist) . . (+413) . . Thunder
- 15:51, 15 October 2010 (diff | hist) . . (+246) . . Thunder
- 15:48, 15 October 2010 (diff | hist) . . (+16) . . Thunder
- 15:41, 15 October 2010 (diff | hist) . . (+1) . . Thunder
- 15:40, 15 October 2010 (diff | hist) . . (+15) . . Thunder
- 15:40, 15 October 2010 (diff | hist) . . (+177) . . Thunder
- 15:29, 15 October 2010 (diff | hist) . . (+109) . . Thunder
- 15:22, 15 October 2010 (diff | hist) . . (+348) . . Thunder
- 15:17, 15 October 2010 (diff | hist) . . (+75) . . Thunder
- 13:12, 15 October 2010 (diff | hist) . . (+112) . . Thunder
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