PHASE - Revision history

Tanthony@uab.edu: added category bioinformatics

2012-04-04T15:21:44Z

added category bioinformatics

← Older revision		Revision as of 15:21, 4 April 2012
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	</pre>		</pre>

	[[Category:Software]]		[[Category:Software]][[Category:Bioinformatics]]

Tanthony@uab.edu: added category software

2012-04-04T14:14:00Z

added category software

← Older revision		Revision as of 14:14, 4 April 2012
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	module load phase/phase		module load phase/phase
	</pre>		</pre>

			[[Category:Software]]

Tanthony@uab.edu at 19:52, 2 April 2012

2012-04-02T19:52:46Z

← Older revision		Revision as of 19:52, 2 April 2012
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	'''Project website:''' http://depts.washington.edu/uwc4c/express-licenses/assets/phase/		'''Project website:''' http://depts.washington.edu/uwc4c/express-licenses/assets/phase/

			====Load SGE module====
	The following Modules files should be loaded for this package:		The following Modules files should be loaded for this package:
	<pre>		<pre>
	module load phase/phase		module load phase/phase
	</pre>		</pre>

Tanthony@uab.edu at 18:49, 2 April 2012

2012-04-02T18:49:51Z

← Older revision		Revision as of 18:49, 2 April 2012
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	The software also incorporates methods for estimating recombination rates, and identifying recombination hotspots:		The software also incorporates methods for estimating recombination rates, and identifying recombination hotspots:
	* Crawford et al (2004). Evidence for substantial fine-scale variation in recombination rates across the human genome. [http://stephenslab.uchicago.edu/MSpapers/Crawford2004.pdf Nature Genetics]		* Crawford et al (2004). Evidence for substantial fine-scale variation in recombination rates across the human genome. [http://stephenslab.uchicago.edu/MSpapers/Crawford2004.pdf Nature Genetics]


	Documentation on the usage of PHASE can be downloaded [http://stephenslab.uchicago.edu/instruct2.1.pdf here].		Documentation on the usage of PHASE can be downloaded [http://stephenslab.uchicago.edu/instruct2.1.pdf here].

	Project ~~Website~~: http://depts.washington.edu/uwc4c/express-licenses/assets/phase/		'''Project website:''' http://depts.washington.edu/uwc4c/express-licenses/assets/phase/

	The following Modules files should be loaded for this package:		The following Modules files should be loaded for this package:

Tanthony@uab.edu: added links..

2012-03-20T13:50:24Z

added links..

← Older revision		Revision as of 13:50, 20 March 2012
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	PHASE is software for haplotype reconstruction, and recombination rate estimation from population data. The software implements methods for estimating haplotypes from population genotype data described in:		[http://stephenslab.uchicago.edu/software.html#phase PHASE] is software for haplotype reconstruction, and recombination rate estimation from population data. The software implements methods for estimating haplotypes from population genotype data described in:

	* Stephens, M., and Donnelly, P. (2003). A comparison of Bayesian methods for haplotype reconstruction from population genotype data. American Journal of Human Genetics, [http://stephenslab.uchicago.edu/MSpapers/Stephens2003a.pdf 73:1162-1169].		* Stephens, M., and Donnelly, P. (2003). A comparison of Bayesian methods for haplotype reconstruction from population genotype data. American Journal of Human Genetics, [http://stephenslab.uchicago.edu/MSpapers/Stephens2003a.pdf 73:1162-1169].
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	Documentation on the usage of PHASE can be downloaded [http://stephenslab.uchicago.edu/instruct2.1.pdf here].		Documentation on the usage of PHASE can be downloaded [http://stephenslab.uchicago.edu/instruct2.1.pdf here].

			Project Website: http://depts.washington.edu/uwc4c/express-licenses/assets/phase/

	The following Modules files should be loaded for this package:		The following Modules files should be loaded for this package:

Tanthony@uab.edu: created page with generic stub

2012-03-19T15:02:23Z

created page with generic stub

New page

{{Generic_stub}}

PHASE is software for haplotype reconstruction, and recombination rate estimation from population data. The software implements methods for estimating haplotypes from population genotype data described in:

* Stephens, M., and Donnelly, P. (2003). A comparison of Bayesian methods for haplotype reconstruction from population genotype data. American Journal of Human Genetics, [http://stephenslab.uchicago.edu/MSpapers/Stephens2003a.pdf 73:1162-1169].
* Stephens, M., Smith, N., and Donnelly, P. (2001). A new statistical method for haplotype reconstruction from population data. American Journal of Human Genetics, [http://stephenslab.uchicago.edu/MSpapers/Stephens2001.pdf 68, 978--989].
* Stephens, M., and Scheet, P. (2005). Accounting for Decay of Linkage Disequilibrium in Haplotype Inference and Missing-Data Imputation. American Journal of Human Genetics, [http://stephenslab.uchicago.edu/MSpapers/Stephens2005.pdf 76:449-462].

The software also incorporates methods for estimating recombination rates, and identifying recombination hotspots:
* Crawford et al (2004). Evidence for substantial fine-scale variation in recombination rates across the human genome. [http://stephenslab.uchicago.edu/MSpapers/Crawford2004.pdf Nature Genetics]

Documentation on the usage of PHASE can be downloaded [http://stephenslab.uchicago.edu/instruct2.1.pdf here].

The following Modules files should be loaded for this package:
<pre>
module load phase/phase
</pre>