# HG changeset patch # User rnateam # Date 1433497626 14400 # Node ID 28a85319a3c61e85359e5a76f055387ea746bbdd Uploaded diff -r 000000000000 -r 28a85319a3c6 compalignp.xml --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/compalignp.xml Fri Jun 05 05:47:06 2015 -0400 @@ -0,0 +1,50 @@ + + + + compalignp + + + + + + + $output +]]> + + + + + + + + + + + + + + + + + + Paranoia version of squids compalign. + +Compute fractional "identity" between trusted alignment and test alignment +Identity of the multiple sequence alignments is defined as +the averaged identity over all N(N-1)/2 pairwise alignments. + + +]]> + + + 10.1186/1748-7188-1-19 + + diff -r 000000000000 -r 28a85319a3c6 tests/eukaryotic-trnas_2.1.clustal --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/tests/eukaryotic-trnas_2.1.clustal Fri Jun 05 05:47:06 2015 -0400 @@ -0,0 +1,7 @@ +CLUSTAL 2.1 multiple sequence alignment + + +Anolis_carolinensis_chrUn_GL34 TGGGAATTAGCTCAAATGGTAGAGCGCTCGCTTAGCATGTGAGAGGTAGTGGGATCGATGCCCACATTCTCCA +Anolis_carolinensis_chrUn_GL35 GGGGAATTAGCTCAAATGGTAGAGCGCTCGCTTAGCATGCGAGAGGTAGCGGGATTGATGCCCGCATTCTCCA + ************************************** ************** ******* ********* + diff -r 000000000000 -r 28a85319a3c6 tests/eukaryotic-trnas_2.1.out --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/tests/eukaryotic-trnas_2.1.out Fri Jun 05 05:47:06 2015 -0400 @@ -0,0 +1,1 @@ +1.00 diff -r 000000000000 -r 28a85319a3c6 tool_dependencies.xml --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/tool_dependencies.xml Fri Jun 05 05:47:06 2015 -0400 @@ -0,0 +1,22 @@ + + + + + + + + + http://www.biophys.uni-duesseldorf.de/bralibase/compalignp.tgz + + + + + + make" + + $INSTALL_DIR + + + + +