Birdsuite - Revision history

Tanthony@uab.edu: added category bioinformatics

2012-04-04T15:04:41Z

added category bioinformatics

← Older revision		Revision as of 15:04, 4 April 2012
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	[[Category:Software]]		[[Category:Software]][[Category:Bioinformatics]]

Tanthony@uab.edu: added category software

2012-04-04T13:45:29Z

added category software

← Older revision		Revision as of 13:45, 4 April 2012
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	module load birdsuite/birdsuite-1.5		module load birdsuite/birdsuite-1.5
	</pre>		</pre>


			[[Category:Software]]

Tanthony@uab.edu at 19:42, 2 April 2012

2012-04-02T19:42:52Z

← Older revision		Revision as of 19:42, 2 April 2012
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	</pre>		</pre>

			====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 birdsuite/birdsuite-1.5		module load birdsuite/birdsuite-1.5
	</pre>		</pre>

Tanthony@uab.edu at 18:11, 2 April 2012

2012-04-02T18:11:03Z

← Older revision		Revision as of 18:11, 2 April 2012
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	[http://www.broadinstitute.org/scientific-community/science/programs/medical-and-population-genetics/birdsuite/birdsuite Birdsuite] is a fully open-source set of tools to detect and report SNP genotypes, common Copy-Number Polymorphisms (CNPs), and novel, rare, or de novo CNVs in samples processed with the Affymetrix platform. While most of the components of the suite can be run individually (for instance, to only do SNP genotyping), the Birdsuite is especially intended for integrated analysis of SNPs and CNVs. Support for chips and platforms other than the Affymetrix SNP 6.0 is currently limited, but we are currently working on creating the supporting files for other common genotyping platforms.		[http://www.broadinstitute.org/scientific-community/science/programs/medical-and-population-genetics/birdsuite/birdsuite Birdsuite] is a fully open-source set of tools to detect and report SNP genotypes, common Copy-Number Polymorphisms (CNPs), and novel, rare, or de novo CNVs in samples processed with the Affymetrix platform. While most of the components of the suite can be run individually (for instance, to only do SNP genotyping), the Birdsuite is especially intended for integrated analysis of SNPs and CNVs. Support for chips and platforms other than the Affymetrix SNP 6.0 is currently limited, but we are currently working on creating the supporting files for other common genotyping platforms.

	Project website: http://www.broadinstitute.org/scientific-community/science/programs/medical-and-population-genetics/birdsuite/birdsuite		'''Project website:''' http://www.broadinstitute.org/scientific-community/science/programs/medical-and-population-genetics/birdsuite/birdsuite

	An example job submission script can be found here (copy this to your job directory and make sure to edit the email address!)		An example job submission script can be found here (copy this to your job directory and make sure to edit the email address!)

Tanthony@uab.edu: added links

2012-04-02T18:03:44Z

added links

← Older revision		Revision as of 18:03, 2 April 2012
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	~~The~~ Birdsuite is a fully open-source set of tools to detect and report SNP genotypes, common Copy-Number Polymorphisms (CNPs), and novel, rare, or de novo CNVs in samples processed with the Affymetrix platform. While most of the components of the suite can be run individually (for instance, to only do SNP genotyping), the Birdsuite is especially intended for integrated analysis of SNPs and CNVs. Support for chips and platforms other than the Affymetrix SNP 6.0 is currently limited, but we are currently working on creating the supporting files for other common genotyping platforms.		[http://www.broadinstitute.org/scientific-community/science/programs/medical-and-population-genetics/birdsuite/birdsuite Birdsuite] is a fully open-source set of tools to detect and report SNP genotypes, common Copy-Number Polymorphisms (CNPs), and novel, rare, or de novo CNVs in samples processed with the Affymetrix platform. While most of the components of the suite can be run individually (for instance, to only do SNP genotyping), the Birdsuite is especially intended for integrated analysis of SNPs and CNVs. Support for chips and platforms other than the Affymetrix SNP 6.0 is currently limited, but we are currently working on creating the supporting files for other common genotyping platforms.

			Project website: http://www.broadinstitute.org/scientific-community/science/programs/medical-and-population-genetics/birdsuite/birdsuite

	An example job submission script can be found here (copy this to your job directory and make sure to edit the email address!)		An example job submission script can be found here (copy this to your job directory and make sure to edit the email address!)

Tanthony@uab.edu: started page

2012-03-15T16:02:19Z

started page

New page

{{Generic_stub}}

The Birdsuite is a fully open-source set of tools to detect and report SNP genotypes, common Copy-Number Polymorphisms (CNPs), and novel, rare, or de novo CNVs in samples processed with the Affymetrix platform. While most of the components of the suite can be run individually (for instance, to only do SNP genotyping), the Birdsuite is especially intended for integrated analysis of SNPs and CNVs. Support for chips and platforms other than the Affymetrix SNP 6.0 is currently limited, but we are currently working on creating the supporting files for other common genotyping platforms.

An example job submission script can be found here (copy this to your job directory and make sure to edit the email address!)
<pre>
/share/apps/example-scripts/birdsuite-job.qsub
</pre>

The following Modules files should be loaded for this package:
<pre>
module load birdsuite/birdsuite-1.5
</pre>