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

PhaseByTransmission: small typo /n. variantCallQC_summaryTablesOnly.R: small changes (more to come) /n GeneralCallingPipeline.scala: the new pipeline script. It is not as clean as I want it to be, but it works. I still going to work on it a little bit more. Also, it does not include yet: (1) the RR step (2) need better eval step (3) need to include other targets (currently it eork on the CEU Trio)

This commit is contained in:
Ami Levy Moonshine 2012-10-11 14:51:41 -04:00
parent 11540da98b
commit ef3882f439
1 changed files with 1 additions and 1 deletions
Show Stats Download Patch File Download Diff File Expand all files Collapse all files

2
public/java/src/org/broadinstitute/sting/gatk/walkers/phasing/PhaseByTransmission.java
View File

@ -36,7 +36,7 @@ import java.util.*;
* <ul>
* <li>In parent/child pairs: If an individual genotype is missing at one site, the other one is phased if it is homozygous. No phasing probability is emitted.</li>
* <li>In trios: If the child is missing, parents are treated as separate individuals and phased if homozygous. No phasing probability is emitted.</li>
* <li>In trios: If one of the parents is missing, it is handled like a parent/child pair. Phasing is done unless both the parent and child are heterozygous and a phasing probabilitt is emitted.</li>
* <li>In trios: If one of the parents is missing, it is handled like a parent/child pair. Phasing is done unless both the parent and child are heterozygous and a phasing probability is emitted.</li>
* <li>In trios: If two individuals are missing, the remaining individual is phased if it is homozygous. No phasing probability is emitted.</li>
* </ul>
*