TrioCaller - Revision history

Weich: /* Download */

2015-05-19T22:01:47Z

Download

← Older revision		Revision as of 18:01, 19 May 2015
Line 21:		Line 21:
	'''TrioCaller''' : the version we used in the paper.		'''TrioCaller''' : the version we used in the paper.
	<br>		<br>
	[[Binary file only:]] [http://~~www~~.sph.umich.edu~~/csg~~/weich/TrioCaller.06262012.binary.tgz TrioCaller.06262012.binary.tgz].		[[Binary file only:]] [http://csg.sph.umich.edu/weich/TrioCaller.06262012.binary.tgz TrioCaller.06262012.binary.tgz].

	[[Binary file with example datasets :]] [http://~~www~~.sph.umich.edu~~/csg~~/weich/TrioCaller.06262012.tgz TrioCaller.06262012.tgz].		[[Binary file with example datasets :]] [http://csg.sph.umich.edu/weich/TrioCaller.06262012.tgz TrioCaller.06262012.tgz].

	[http://genome.sph.umich.edu/wiki/TrioCaller:Archive Archive].		[http://genome.sph.umich.edu/wiki/TrioCaller:Archive Archive].

Weich: /* Download */

2014-08-18T14:04:54Z

Download

← Older revision		Revision as of 10:04, 18 August 2014
Line 16:		Line 16:
	'''A recent extension of TrioCaller: [http://genome.sph.umich.edu/wiki/FamLDCaller FamLDCaller] is coming soon with major updates (better processing function, handling general families and reference panels). Please try the beta version below. Contact weichen.mich@gmail.com for any questions.'''		'''A recent extension of TrioCaller: [http://genome.sph.umich.edu/wiki/FamLDCaller FamLDCaller] is coming soon with major updates (better processing function, handling general families and reference panels). Please try the beta version below. Contact weichen.mich@gmail.com for any questions.'''

	[[Binary file ~~only~~:]] [http://www.~~sph.umich~~.edu/~~csg/weich~~/~~tmp~~/FamLDCaller FamLDCaller]. [Last update: 01/11/2014]		[[Binary file:]] [http://www.pitt.edu/~wec47/Files/FamLDCaller FamLDCaller]. [Last update: 08/15/2014]


Line 28:		Line 28:

	'''		'''

	== An example from sequence data to genotypes ==		== An example from sequence data to genotypes ==
	'''		'''

Weich: /* Download */

2014-04-03T19:04:01Z

Download

← Older revision		Revision as of 15:04, 3 April 2014
Line 27:		Line 27:
	[http://genome.sph.umich.edu/wiki/TrioCaller:Archive Archive].		[http://genome.sph.umich.edu/wiki/TrioCaller:Archive Archive].

	'''~~'''~~An example from sequence data to genotypes~~.'''~~'''		'''
			== An example from sequence data to genotypes ==
			'''

	The example dataset demonstrated here is also included. Our dataset consists of 40 individuals, including 10 parent-offspring trios and 10 unrelated individuals. The average sequence depth is ~3x. README.txt describes the structure of the package. Pipeline.csh (C shell) and pipeline.bash (bash shell) are two scripts for you to run all commands listed here in batch.		The example dataset demonstrated here is also included. Our dataset consists of 40 individuals, including 10 parent-offspring trios and 10 unrelated individuals. The average sequence depth is ~3x. README.txt describes the structure of the package. Pipeline.csh (C shell) and pipeline.bash (bash shell) are two scripts for you to run all commands listed here in batch.

Weich: /* Download */

2014-04-03T19:03:36Z

Download

← Older revision		Revision as of 15:03, 3 April 2014
Line 27:		Line 27:
	[http://genome.sph.umich.edu/wiki/TrioCaller:Archive Archive].		[http://genome.sph.umich.edu/wiki/TrioCaller:Archive Archive].

	'''An example from sequence data to genotypes.'''		''''''An example from sequence data to genotypes.''''''

	The example dataset demonstrated here is also included. Our dataset consists of 40 individuals, including 10 parent-offspring trios and 10 unrelated individuals. The average sequence depth is ~3x. README.txt describes the structure of the package. Pipeline.csh (C shell) and pipeline.bash (bash shell) are two scripts for you to run all commands listed here in batch.		The example dataset demonstrated here is also included. Our dataset consists of 40 individuals, including 10 parent-offspring trios and 10 unrelated individuals. The average sequence depth is ~3x. README.txt describes the structure of the package. Pipeline.csh (C shell) and pipeline.bash (bash shell) are two scripts for you to run all commands listed here in batch.

Weich: /* Download */

2014-04-03T19:03:19Z

Download

← Older revision		Revision as of 15:03, 3 April 2014
Line 26:		Line 26:

	[http://genome.sph.umich.edu/wiki/TrioCaller:Archive Archive].		[http://genome.sph.umich.edu/wiki/TrioCaller:Archive Archive].

			'''An example from sequence data to genotypes.'''

	The example dataset demonstrated here is also included. Our dataset consists of 40 individuals, including 10 parent-offspring trios and 10 unrelated individuals. The average sequence depth is ~3x. README.txt describes the structure of the package. Pipeline.csh (C shell) and pipeline.bash (bash shell) are two scripts for you to run all commands listed here in batch.		The example dataset demonstrated here is also included. Our dataset consists of 40 individuals, including 10 parent-offspring trios and 10 unrelated individuals. The average sequence depth is ~3x. README.txt describes the structure of the package. Pipeline.csh (C shell) and pipeline.bash (bash shell) are two scripts for you to run all commands listed here in batch.

Weich: /* Download */

2014-01-12T21:18:29Z

Download

← Older revision		Revision as of 17:18, 12 January 2014
Line 16:		Line 16:
	'''A recent extension of TrioCaller: [http://genome.sph.umich.edu/wiki/FamLDCaller FamLDCaller] is coming soon with major updates (better processing function, handling general families and reference panels). Please try the beta version below. Contact weichen.mich@gmail.com for any questions.'''		'''A recent extension of TrioCaller: [http://genome.sph.umich.edu/wiki/FamLDCaller FamLDCaller] is coming soon with major updates (better processing function, handling general families and reference panels). Please try the beta version below. Contact weichen.mich@gmail.com for any questions.'''

	[[Binary file only:]] [http://www.sph.umich.edu/csg/weich/tmp/FamLDCaller FamLDCaller]. [Last update: 12/01/~~2013~~]		[[Binary file only:]] [http://www.sph.umich.edu/csg/weich/tmp/FamLDCaller FamLDCaller]. [Last update: 01/11/2014]

Weich: /* Download */

2013-12-13T22:23:04Z

Download

← Older revision		Revision as of 18:23, 13 December 2013
Line 14:		Line 14:
	Before downloading the program, we appreciate if you could email [mailto:weichen.mich@gmail.com weichen.mich@gmail.com] (Subject: TrioCaller, with/without a little descriptive information (e.g. Affiliation, depth, the number of samples and family structure). We will notify you if there is any update.		Before downloading the program, we appreciate if you could email [mailto:weichen.mich@gmail.com weichen.mich@gmail.com] (Subject: TrioCaller, with/without a little descriptive information (e.g. Affiliation, depth, the number of samples and family structure). We will notify you if there is any update.

	'''A ~~new version~~ with major updates (better processing function, handling general families and reference panels) ~~is coming soon~~. Please try the beta version below. Contact weichen.mich@gmail.com for any questions.'''		'''A recent extension of TrioCaller: [http://genome.sph.umich.edu/wiki/FamLDCaller FamLDCaller] is coming soon with major updates (better processing function, handling general families and reference panels). Please try the beta version below. Contact weichen.mich@gmail.com for any questions.'''

	[[Binary file only:]] [http://www.sph.umich.edu/csg/weich/tmp/FamLDCaller FamLDCaller]. [Last update: 12/01/2013]		[[Binary file only:]] [http://www.sph.umich.edu/csg/weich/tmp/FamLDCaller FamLDCaller]. [Last update: 12/01/2013]

Weich: /* Download */

2013-12-13T19:28:22Z

Download

← Older revision		Revision as of 15:28, 13 December 2013
Line 16:		Line 16:
	'''A new version with major updates (better processing function, handling general families and reference panels) is coming soon. Please try the beta version below. Contact weichen.mich@gmail.com for any questions.'''		'''A new version with major updates (better processing function, handling general families and reference panels) is coming soon. Please try the beta version below. Contact weichen.mich@gmail.com for any questions.'''

	[[Binary file only:]] [http://www.sph.umich.edu/csg/weich/FamLDCaller FamLDCaller]. [Last update: 12/01/2013]		[[Binary file only:]] [http://www.sph.umich.edu/csg/weich/tmp/FamLDCaller FamLDCaller]. [Last update: 12/01/2013]

Weich: /* Download */

2013-12-13T19:27:31Z

Download

← Older revision		Revision as of 15:27, 13 December 2013
Line 19:		Line 19:


	'''TrioCaller'''		'''TrioCaller''' : the version we used in the paper.
	<br>		<br>
	[[Binary file only:]] [http://www.sph.umich.edu/csg/weich/TrioCaller.06262012.binary.tgz TrioCaller.06262012.binary.tgz].		[[Binary file only:]] [http://www.sph.umich.edu/csg/weich/TrioCaller.06262012.binary.tgz TrioCaller.06262012.binary.tgz].

Weich: /* Download */

2013-12-13T19:26:33Z

Download

← Older revision		Revision as of 15:26, 13 December 2013
Line 14:		Line 14:
	Before downloading the program, we appreciate if you could email [mailto:weichen.mich@gmail.com weichen.mich@gmail.com] (Subject: TrioCaller, with/without a little descriptive information (e.g. Affiliation, depth, the number of samples and family structure). We will notify you if there is any update.		Before downloading the program, we appreciate if you could email [mailto:weichen.mich@gmail.com weichen.mich@gmail.com] (Subject: TrioCaller, with/without a little descriptive information (e.g. Affiliation, depth, the number of samples and family structure). We will notify you if there is any update.

	'''A new version with major updates ~~to handle~~ general families and reference panels is coming soon. Please try the beta version below. Contact weichen.mich@gmail.com for any questions.'''		'''A new version with major updates (better processing function, handling general families and reference panels) is coming soon. Please try the beta version below. Contact weichen.mich@gmail.com for any questions.'''

	[[Binary file only:]] [http://www.sph.umich.edu/csg/weich/FamLDCaller FamLDCaller]. [Last update: 12/01/2013]		[[Binary file only:]] [http://www.sph.umich.edu/csg/weich/FamLDCaller FamLDCaller]. [Last update: 12/01/2013]


	TrioCaller:		'''TrioCaller'''
	<br>		<br>
	[[Binary file only:]] [http://www.sph.umich.edu/csg/weich/TrioCaller.06262012.binary.tgz TrioCaller.06262012.binary.tgz].		[[Binary file only:]] [http://www.sph.umich.edu/csg/weich/TrioCaller.06262012.binary.tgz TrioCaller.06262012.binary.tgz].