# HG changeset patch # User Jim Johnson # Date 1362087684 21600 # Node ID b99c25b0ad4d0e3056833eac3b233c9995e54952 # Parent 76f8ca47b810a0af6aed296669bca7aae2bfeeb4 Update tool version to 0.0.7 diff -r 76f8ca47b810 -r b99c25b0ad4d base_recalibrator.xml --- a/base_recalibrator.xml Thu Feb 28 15:32:04 2013 -0600 +++ b/base_recalibrator.xml Thu Feb 28 15:41:24 2013 -0600 @@ -1,4 +1,4 @@ - + on BAM files gatk diff -r 76f8ca47b810 -r b99c25b0ad4d depth_of_coverage.xml --- a/depth_of_coverage.xml Thu Feb 28 15:32:04 2013 -0600 +++ b/depth_of_coverage.xml Thu Feb 28 15:41:24 2013 -0600 @@ -1,4 +1,4 @@ - + on BAM files gatk diff -r 76f8ca47b810 -r b99c25b0ad4d haplotype_caller.xml --- a/haplotype_caller.xml Thu Feb 28 15:32:04 2013 -0600 +++ b/haplotype_caller.xml Thu Feb 28 15:41:24 2013 -0600 @@ -1,4 +1,4 @@ - + Call SNPs and indels simultaneously via local de-novo assembly of haplotypes in an active region gatk diff -r 76f8ca47b810 -r b99c25b0ad4d indel_realigner.xml --- a/indel_realigner.xml Thu Feb 28 15:32:04 2013 -0600 +++ b/indel_realigner.xml Thu Feb 28 15:41:24 2013 -0600 @@ -1,4 +1,4 @@ - + - perform local realignment gatk diff -r 76f8ca47b810 -r b99c25b0ad4d print_reads.xml --- a/print_reads.xml Thu Feb 28 15:32:04 2013 -0600 +++ b/print_reads.xml Thu Feb 28 15:41:24 2013 -0600 @@ -1,4 +1,4 @@ - + on BAM files gatk diff -r 76f8ca47b810 -r b99c25b0ad4d realigner_target_creator.xml --- a/realigner_target_creator.xml Thu Feb 28 15:32:04 2013 -0600 +++ b/realigner_target_creator.xml Thu Feb 28 15:41:24 2013 -0600 @@ -1,4 +1,4 @@ - + for use in local realignment gatk diff -r 76f8ca47b810 -r b99c25b0ad4d reduce_reads.xml --- a/reduce_reads.xml Thu Feb 28 15:32:04 2013 -0600 +++ b/reduce_reads.xml Thu Feb 28 15:41:24 2013 -0600 @@ -1,4 +1,4 @@ - + in BAM files gatk diff -r 76f8ca47b810 -r b99c25b0ad4d unified_genotyper.xml --- a/unified_genotyper.xml Thu Feb 28 15:32:04 2013 -0600 +++ b/unified_genotyper.xml Thu Feb 28 15:41:24 2013 -0600 @@ -1,4 +1,4 @@ - + SNP and indel caller gatk diff -r 76f8ca47b810 -r b99c25b0ad4d variant_annotator.xml --- a/variant_annotator.xml Thu Feb 28 15:32:04 2013 -0600 +++ b/variant_annotator.xml Thu Feb 28 15:41:24 2013 -0600 @@ -1,4 +1,4 @@ - + gatk diff -r 76f8ca47b810 -r b99c25b0ad4d variant_apply_recalibration.xml --- a/variant_apply_recalibration.xml Thu Feb 28 15:32:04 2013 -0600 +++ b/variant_apply_recalibration.xml Thu Feb 28 15:41:24 2013 -0600 @@ -1,4 +1,4 @@ - + gatk diff -r 76f8ca47b810 -r b99c25b0ad4d variant_combine.xml --- a/variant_combine.xml Thu Feb 28 15:32:04 2013 -0600 +++ b/variant_combine.xml Thu Feb 28 15:41:24 2013 -0600 @@ -1,4 +1,4 @@ - + gatk diff -r 76f8ca47b810 -r b99c25b0ad4d variant_eval.xml --- a/variant_eval.xml Thu Feb 28 15:32:04 2013 -0600 +++ b/variant_eval.xml Thu Feb 28 15:41:24 2013 -0600 @@ -1,4 +1,4 @@ - + gatk diff -r 76f8ca47b810 -r b99c25b0ad4d variant_filtration.xml --- a/variant_filtration.xml Thu Feb 28 15:32:04 2013 -0600 +++ b/variant_filtration.xml Thu Feb 28 15:41:24 2013 -0600 @@ -1,4 +1,4 @@ - + on VCF files gatk diff -r 76f8ca47b810 -r b99c25b0ad4d variant_recalibrator.xml --- a/variant_recalibrator.xml Thu Feb 28 15:32:04 2013 -0600 +++ b/variant_recalibrator.xml Thu Feb 28 15:41:24 2013 -0600 @@ -1,4 +1,4 @@ - + gatk diff -r 76f8ca47b810 -r b99c25b0ad4d variant_select.xml --- a/variant_select.xml Thu Feb 28 15:32:04 2013 -0600 +++ b/variant_select.xml Thu Feb 28 15:41:24 2013 -0600 @@ -1,4 +1,4 @@ - + from VCF files gatk diff -r 76f8ca47b810 -r b99c25b0ad4d variants_validate.xml --- a/variants_validate.xml Thu Feb 28 15:32:04 2013 -0600 +++ b/variants_validate.xml Thu Feb 28 15:41:24 2013 -0600 @@ -1,4 +1,4 @@ - + gatk