zzh
/
gatk-3.8
1
0
Fork 0
Code Issues Pull Requests Packages Projects Releases Wiki Activity

Adding minor usage docs 

git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@4765 348d0f76-0448-11de-a6fe-93d51630548a
This commit is contained in:
ebanks 2010-12-01 17:34:33 +00:00
parent 0d1c905df3
commit 6a6cdc1925
2 changed files with 3 additions and 0 deletions
Show Stats Download Patch File Download Diff File Expand all files Collapse all files

1
java/src/org/broadinstitute/sting/gatk/walkers/genotyper/UGCalcLikelihoods.java
View File

@ -41,6 +41,7 @@ import java.util.*;
/** /**
* Uses the UG engine to determine per-sample genotype likelihoods and emits them as a VCF (using PLs). * Uses the UG engine to determine per-sample genotype likelihoods and emits them as a VCF (using PLs).
* Absolutely not supported or recommended for public use. * Absolutely not supported or recommended for public use.
* Run this as you would the UnifiedGenotyper.
*/ */
@Reference(window=@Window(start=-200,stop=200)) @Reference(window=@Window(start=-200,stop=200))
@By(DataSource.READS) @By(DataSource.READS)

2
java/src/org/broadinstitute/sting/gatk/walkers/genotyper/UGCallVariants.java
View File

@ -43,6 +43,8 @@ import java.util.*;
/** /**
* Uses the UG engine to call variants based off of VCFs annotated with GLs (or PLs). * Uses the UG engine to call variants based off of VCFs annotated with GLs (or PLs).
* Absolutely not supported or recommended for public use. * Absolutely not supported or recommended for public use.
* Run this as you would the UnifiedGenotyper, except that instead of '-I reads' it expects any number
* of GL/PL-annotated VCFs bound to a name starting with 'variant'.
*/ */
public class UGCallVariants extends RodWalker<VariantCallContext, Integer> { public class UGCallVariants extends RodWalker<VariantCallContext, Integer> {