jmaguire 4e0cd6ab84 Now works on single samples and computes metrics. ... Here is an example metrics output from a very tiny region: Allele Frequency Metrics (LOD >= 5) ------------------------------------------------- Total loci : 14704 Total called with confidence : 10920 (74.27%) Number of Variants : 16 (0.15%) (1/682) Fraction of variant sites in dbSNP : 100.00% Missing: Microarray(hapmap) concordance, tp/fp. Optional: Histograms of depth of coverage, LOD, observed allele frequency, etc. Still to implement: Propagate command line argument N (number of chromosomes) into walker to enable pooled calling. Take allele frequency priors as input. git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@133 348d0f76-0448-11de-a6fe-93d51630548a		2009-03-22 15:45:12 +00:00
..
c	Move to new directory organization.	2009-03-11 20:58:01 +00:00
java/src/org/broadinstitute/sting	Now works on single samples and computes metrics.	2009-03-22 15:45:12 +00:00
python	Now supports checking that the input files exist and are good	2009-03-20 16:40:54 +00:00
shell	Renaming of ATK to GATK, the genome analysis TK.	2009-03-15 22:21:48 +00:00