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• 1000 Genomes Project Pilot 1 SNP Calling
  key command: glfSplit<br>Source codes: ~goncalo/code/glfSplit/ ...BGZF<br>Source codes&nbsp;: /home/ylwtx/codes/cpp/glfMerge<br> Originally ~goncalo/code/glfMerge<br>Input&nbsp;: GLF files for one individual<br>Output&nbsp;:
  7 KB (1,088 words) - 13:35, 10 March 2010
• Biostatistics 615/815: Main Page
  ...r previous course notes, see [[http://www.sph.umich.edu/csg/abecasis/class Goncalo's older class notes]].
  8 KB (1,077 words) - 21:53, 18 December 2012
• 830 - MINIMAC::main()
  "(c) 2010-2011 Goncalo Abecasis, Christian Fuchsberger\n");
  12 KB (1,088 words) - 15:06, 2 October 2013
• TabAnno
  ... Xiaowei Zhan, Goncalo Abecasis ... ...mich.edu zhanxw@umich.edu]) or Goncalo Abecasis ([mailto:goncalo@umich.edu goncalo@umich.edu])
  14 KB (1,969 words) - 11:57, 2 February 2017
• Thunder
  ...ped by [mailto:yunli@med.unc.edu Yun Li] and for [mailto:goncalo@umich.edu Goncalo Abecasis] the 1000 Genomes Low Coverage Pilot Project.
  4 KB (605 words) - 12:08, 21 February 2017
• Haploxt
  ...ph.umich.edu/csg/yli/ Yun Li] and [https://www.sph.umich.edu/csg/abecasis/ Goncalo Abecasis]. It calculates LD (D' and r²) from phased haplotypes.
  4 KB (510 words) - 18:22, 21 October 2010
• Minimac3 ChangeLog
  The Unique.cpp file was updated according to Goncalo's packVcf so-
  10 KB (1,262 words) - 22:24, 6 June 2016
• QPLOT
  ...ngshan Li, Xiaowei Zhan, Mary-Kate Wing, Paul Anderson, Hyun Min Kang, and Goncalo R. Abecasis, “QPLOT: A Quality Assessment Tool for Next Generation Sequen ...mich.edu zhanxw@umich.edu]) or Goncalo Abecasis ([mailto:goncalo@umich.edu goncalo@umich.edu])
  16 KB (2,386 words) - 11:42, 2 February 2017
• TrioCaller
  ...ating GLF requires an old version of samtools that most people don't have. Goncalo ...m weichen.mich@gmail.com] or Goncalo Abecasis at [mailto:goncalo@umich.edu goncalo@umich.edu]
  15 KB (2,470 words) - 18:01, 19 May 2015
• An example of using libcsg
  Here I showed an example using Goncalo's library (I assume he agreed me to do so).<br>
  5 KB (693 words) - 00:39, 15 January 2010
• SAM/BAM Convert Sequence
  '''Requester:''' Goncalo Abecasis & Hyun Min Kang
  12 KB (1,651 words) - 10:37, 2 February 2017
• Minimac2
  Please contact [mailto:goncalo@umich.edu Goncalo Abecasis] or [mailto:cfuchsb@umich.edu Christian Fuchsberger]. Please contact [mailto:goncalo@umich.edu Goncalo Abecasis] or [mailto:cfuchsb@umich.edu Christian Fuchsberger].
  13 KB (2,050 words) - 12:53, 9 March 2018
• Biostatistics 615/815 Fall 2011
  ...r previous course notes, see [[http://www.sph.umich.edu/csg/abecasis/class Goncalo's older class notes]].
  11 KB (1,312 words) - 17:35, 31 August 2012
• Genezoom
  ...fforts by Cristen Willer, Jin Chen, He zhang, Ellen Schmidt, Wei Zhou, and Goncalo Abecasis. Please email Cristen Willer [cristen@umich.edu] with any question
  7 KB (1,057 words) - 11:40, 16 March 2016
• Minimac: Tutorial
  Please contact [mailto:goncalo@umich.edu Goncalo Abecasis], [mailto:cfuchsb@umich.edu Christian Fuchsberger (minimac)] or [m
  7 KB (1,087 words) - 12:34, 25 January 2017
• Biostatistics 866: Main Page
  April 9 - [[Media:2017.04_-_Adventures_in_Human_Genetics.pdf|Goncalo's Adventure in Human Genetics]]
  9 KB (1,319 words) - 07:21, 18 April 2017
• Minimac
  Please contact [mailto:goncalo@umich.edu Goncalo Abecasis] or [mailto:cfuchsb@umich.edu Christian Fuchsberger]. Please contact [mailto:goncalo@umich.edu Goncalo Abecasis] or [mailto:cfuchsb@umich.edu Christian Fuchsberger].
  16 KB (2,442 words) - 12:53, 9 March 2018
• Famrvtest
  ...g Feng]] (sfengsph at umich.edu) or [[Goncalo_Abecasis|Gonçalo Abecasis]] (goncalo at umich.edu).
  7 KB (1,065 words) - 10:34, 21 February 2017
• Summary Statistics Files Specification for RAREMETAL and rvtests
  ...u]), Shuang Feng([mailto:sfengsph@umich.edu]) or Goncalo Abecasis ([mailto:goncalo@umich.edu]).
  8 KB (658 words) - 11:39, 29 August 2019
• RAREMETALWORKER
  ...aichen at umich dot edu) or [[Goncalo_Abecasis | '''Goncalo Abecasis''']] (goncalo at umich dot edu).
  18 KB (2,478 words) - 13:34, 20 November 2019

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