# HG changeset patch # User iuc # Date 1468839176 14400 # Node ID 39ef8a0e46e1aeed39b5e45966ae266e824f0e91 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/packages/package_stringtie_1_2_3 commit 15099b938e3ef54150ebf6b67969c27928c763c0 diff -r 000000000000 -r 39ef8a0e46e1 tool_dependencies.xml --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/tool_dependencies.xml Mon Jul 18 06:52:56 2016 -0400 @@ -0,0 +1,28 @@ + + + + + + https://ccb.jhu.edu/software/stringtie/dl/stringtie-1.2.3.tar.gz + make release + + stringtie + $INSTALL_DIR/bin + + + $INSTALL_DIR/bin + $INSTALL_DIR + + + + +StringTie is a fast and highly efficient assembler of RNA-Seq alignments into potential transcripts. +It uses a novel network flow algorithm as well as an optional de novo assembly step to assemble and +quantitate full-length transcripts representing multiple splice variants for each gene locus. +Its input can include not only the alignments of raw reads used by other transcript assemblers, +but also alignments longer sequences that have been assembled from those reads. +To identify differentially expressed genes between experiments, StringTie's +output can be processed either by the Cuffdiff or Ballgown programs. + + +