details: http://www.bx.psu.edu/hg/galaxy/rev/df40eae8e86b changeset: 3658:df40eae8e86b user: Anton Nekrutenko anton@bx.psu.edu date: Thu Apr 15 11:10:57 2010 -0400 description: changes to help text
diffstat:
tools/samtools/pileup_parser.xml | 10 +++++----- 1 files changed, 5 insertions(+), 5 deletions(-)
diffs (48 lines):
diff -r 33eab99a2df5 -r df40eae8e86b tools/samtools/pileup_parser.xml --- a/tools/samtools/pileup_parser.xml Thu Apr 15 10:51:51 2010 -0400 +++ b/tools/samtools/pileup_parser.xml Thu Apr 15 11:10:57 2010 -0400 @@ -93,7 +93,7 @@ <param name="type_select" value="ten"/> <param name="qv_cutoff" value="20" /> <param name="cvrg_cutoff" value="3" /> - <param name="snps_only" value="Yes"/> + <param name="snps_only" value="Yes"/>q <param name="interval" value="Yes" /> <param name="diff" value="No" /> <param name="qc_base" value="Yes" /> @@ -183,7 +183,7 @@ 2 Position (1-based) 3 Reference base at that position 4 Coverage (# reads aligning over that position) - 5 Bases within reads where (see Galaxy wiki for more info) + 5 Bases within reads 6 Quality values (phred33 scale, see Galaxy wiki for more)
**Ten column pileup** @@ -210,7 +210,7 @@ 6 SNP quality 7 Maximum mapping quality 8 Coverage (# reads aligning over that position) - 9 Bases within reads where (see Galaxy wiki for more info) + 9 Bases within reads 10 Quality values (phred33 scale, see Galaxy wiki for more)
@@ -255,7 +255,7 @@ 2 Position (1-based) 3 Reference base at that position 4 Coverage (# reads aligning over that position) - 5 Bases within reads where (see Galaxy wiki for more info) + 5 Bases within reads where 6 Quality values (phred33 scale, see Galaxy wiki for more) 7 Number of A variants 8 Number of C variants @@ -289,7 +289,7 @@ 3 End position (1-based) 4 Reference base at that position 5 Coverage (# reads aligning over that position) - 6 Bases within reads where (see Galaxy wiki for more info) + 6 Bases within reads 7 Quality values (phred33 scale, see Galaxy wiki for more) 8 Number of A variants 9 Number of C variants