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TrioCaller (view source)

Revision as of 18:01, 19 May 2015

362 bytes added ,  18:01, 19 May 2015
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=== Download  ===
 
=== Download  ===
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'''A new version with major updates to handle general families and reference panels is coming soon. Contact weichen.mich@gmail.com for a test version.''' 
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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. 
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'''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.''' 
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[[Binary file:]]  [http://www.pitt.edu/~wec47/Files/FamLDCaller FamLDCaller].  [Last update: 08/15/2014]
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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. 
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<br> Binary file only: [http://www.sph.umich.edu/csg/weich/TrioCaller.06262012.binary.tgz TrioCaller.06262012.binary.tgz].  
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'''TrioCaller''' : the version we used in the paper.
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<br>  
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[[Binary file only:]] [http://csg.sph.umich.edu/weich/TrioCaller.06262012.binary.tgz TrioCaller.06262012.binary.tgz].  
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Binary file with example datasets&nbsp;: [http://www.sph.umich.edu/csg/weich/TrioCaller.06262012.tgz TrioCaller.06262012.tgz].  
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[[Binary file with example datasets&nbsp;:]] [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].  
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'''
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== An example from sequence data to genotypes ==
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'''
    
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
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Retrieved from "http://genome.sph.umich.edu/wiki/Special:MobileDiff/9094...13372"

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