wiki:SnpAnnotationPipeline

Version 6 (modified by a.kanterakis, 11 years ago) (diff)

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Annotation from SeattleSeq? AnnotationTool?

Annotate Files with Variants through Seattle Seq Annotation: http://gvs.gs.washington.edu/SeattleSeqAnnotation/ . The java code that wraps the forms is provided from SeattleSeq? Annotation: http://gvs.gs.washington.edu/SeattleSeqAnnotation/SubmitSeattleSeqAnnotationAutoJob.java . This method wraps the wrapper(..) and provides a python implementation. In order to run there should be a directory under the current path, named "jars" with the following jar files:

  • httpunit.jar
  • js-1.6R5.jar
  • junit-3.8.1.jar
  • nekohtml-0.9.5.jar
  • xercesImpl-2.6.1.jar

Pipeline Elements

This section will describe all parts of our annotation pipeline, the scripts have, and the features it will return.

scriptfeaturedescriptionsource
1KGannotation.pyalleleFreqallele freq in 1KG1KG
TODO

End of Pipeline

Related work

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