# HG changeset patch
# User bgruening
# Date 1393074002 18000
# Node ID 8abf4c0a4af0e879989c5d14c6197099759a6e1a
initial Uploaded
diff -r 000000000000 -r 8abf4c0a4af0 rnaz.xml
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/rnaz.xml Sat Feb 22 08:00:02 2014 -0500
@@ -0,0 +1,49 @@
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+ predicting structurally conserved and thermodynamically stable RNA secondary structures
+ RNAz --version
+
+ rnaz
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+
+RNAz $input
+$forward
+$reverse
+$both_strands
+$dinucleotide
+$mononucleotide
+$locarnate
+$no_shuffle
+#if $cutoff_p != -1:
+--cutoff=$cutoff_p
+#end if
+> temp.txt;
+grep -v -E "^ |^#|^$" temp.txt > $outfile;
+grep -E "^ |^#|^$" temp.txt;
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+ **What it does**
+ RNAz is a program for predicting structurally conserved and thermodynamically stable RNA secondary structures in multiple sequence alignments. It can be used in genome wide screens to detect functional RNA structures, as found in noncoding RNAs and cis-acting regulatory elements of mRNAs.
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+Gruber AR, Findeiss, Washietl S, Hofacker IL, and Stadler PF.
+RNAz 2.0: Improved noncoding rna detection.
+Pac Symp Biocomput, 2010. 15:69–79.
+
+
diff -r 000000000000 -r 8abf4c0a4af0 tool_dependencies.xml
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/tool_dependencies.xml Sat Feb 22 08:00:02 2014 -0500
@@ -0,0 +1,14 @@
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+ http://www.tbi.univie.ac.at/~wash/RNAz/RNAz-2.1.tar.gz
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+ $INSTALL_DIR/bin
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+ Compiling RNAz requires a C compiler (typically gcc)
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