# HG changeset patch # User david-hoover # Date 1348152152 14400 # Node ID 1326b011a3b931e08cb841d612dae7c17853389b # Parent 4fa715d44c26a4c8a6340e04dd8b915656aa27bd Uploaded diff -r 4fa715d44c26 -r 1326b011a3b9 base_recalibrator.xml --- a/base_recalibrator.xml Thu Sep 20 10:34:28 2012 -0400 +++ b/base_recalibrator.xml Thu Sep 20 10:42:32 2012 -0400 @@ -1,4 +1,4 @@ - + on BAM files gatk diff -r 4fa715d44c26 -r 1326b011a3b9 depth_of_coverage.xml --- a/depth_of_coverage.xml Thu Sep 20 10:34:28 2012 -0400 +++ b/depth_of_coverage.xml Thu Sep 20 10:42:32 2012 -0400 @@ -1,4 +1,4 @@ - + on BAM files gatk diff -r 4fa715d44c26 -r 1326b011a3b9 indel_realigner.xml --- a/indel_realigner.xml Thu Sep 20 10:34:28 2012 -0400 +++ b/indel_realigner.xml Thu Sep 20 10:42:32 2012 -0400 @@ -1,4 +1,4 @@ - + - perform local realignment gatk diff -r 4fa715d44c26 -r 1326b011a3b9 print_reads.xml --- a/print_reads.xml Thu Sep 20 10:34:28 2012 -0400 +++ b/print_reads.xml Thu Sep 20 10:42:32 2012 -0400 @@ -1,4 +1,4 @@ - + on BAM files gatk diff -r 4fa715d44c26 -r 1326b011a3b9 realigner_target_creator.xml --- a/realigner_target_creator.xml Thu Sep 20 10:34:28 2012 -0400 +++ b/realigner_target_creator.xml Thu Sep 20 10:42:32 2012 -0400 @@ -1,4 +1,4 @@ - + for use in local realignment gatk diff -r 4fa715d44c26 -r 1326b011a3b9 unified_genotyper.xml --- a/unified_genotyper.xml Thu Sep 20 10:34:28 2012 -0400 +++ b/unified_genotyper.xml Thu Sep 20 10:42:32 2012 -0400 @@ -1,4 +1,4 @@ - + SNP and indel caller gatk diff -r 4fa715d44c26 -r 1326b011a3b9 variant_annotator.xml --- a/variant_annotator.xml Thu Sep 20 10:34:28 2012 -0400 +++ b/variant_annotator.xml Thu Sep 20 10:42:32 2012 -0400 @@ -1,4 +1,4 @@ - + gatk diff -r 4fa715d44c26 -r 1326b011a3b9 variant_apply_recalibration.xml --- a/variant_apply_recalibration.xml Thu Sep 20 10:34:28 2012 -0400 +++ b/variant_apply_recalibration.xml Thu Sep 20 10:42:32 2012 -0400 @@ -1,4 +1,4 @@ - + gatk diff -r 4fa715d44c26 -r 1326b011a3b9 variant_combine.xml --- a/variant_combine.xml Thu Sep 20 10:34:28 2012 -0400 +++ b/variant_combine.xml Thu Sep 20 10:42:32 2012 -0400 @@ -1,4 +1,4 @@ - + gatk diff -r 4fa715d44c26 -r 1326b011a3b9 variant_eval.xml --- a/variant_eval.xml Thu Sep 20 10:34:28 2012 -0400 +++ b/variant_eval.xml Thu Sep 20 10:42:32 2012 -0400 @@ -1,4 +1,4 @@ - + gatk diff -r 4fa715d44c26 -r 1326b011a3b9 variant_filtration.xml --- a/variant_filtration.xml Thu Sep 20 10:34:28 2012 -0400 +++ b/variant_filtration.xml Thu Sep 20 10:42:32 2012 -0400 @@ -1,4 +1,4 @@ - + on VCF files gatk diff -r 4fa715d44c26 -r 1326b011a3b9 variant_recalibrator.xml --- a/variant_recalibrator.xml Thu Sep 20 10:34:28 2012 -0400 +++ b/variant_recalibrator.xml Thu Sep 20 10:42:32 2012 -0400 @@ -1,4 +1,4 @@ - + gatk diff -r 4fa715d44c26 -r 1326b011a3b9 variant_select.xml --- a/variant_select.xml Thu Sep 20 10:34:28 2012 -0400 +++ b/variant_select.xml Thu Sep 20 10:42:32 2012 -0400 @@ -1,4 +1,4 @@ - + from VCF files gatk diff -r 4fa715d44c26 -r 1326b011a3b9 variants_validate.xml --- a/variants_validate.xml Thu Sep 20 10:34:28 2012 -0400 +++ b/variants_validate.xml Thu Sep 20 10:42:32 2012 -0400 @@ -1,4 +1,4 @@ - + gatk