# HG changeset patch
# User trinity_ctat
# Date 1531842710 14400
# Node ID a530fa18e9e83fdd448b358d008f3dd850f9c0d8
Upload ctat tools.
diff -r 000000000000 -r a530fa18e9e8 ctat_star_fusion.xml
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/ctat_star_fusion.xml Tue Jul 17 11:51:50 2018 -0400
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+ Fusion-finding Pipeline Using the STAR Aligner
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+ star-fusion
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+.. class:: infomark
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+STAR-Fusion is a component of the Trinity Cancer Transcriptome Analysis Toolkit (CTAT). STAR-Fusion uses the STAR aligner to identify candidate fusion transcripts supported by Illumina reads. STAR-Fusion further processes the output generated by the STAR aligner to map junction reads and spanning reads to a reference annotation set. Please read more here_.
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+.. _here: https://github.com/STAR-Fusion/STAR-Fusion/wiki
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diff -r 000000000000 -r a530fa18e9e8 test-data/StarFusion/reads_1.fq.gz
Binary file test-data/StarFusion/reads_1.fq.gz has changed
diff -r 000000000000 -r a530fa18e9e8 test-data/StarFusion/reads_2.fq.gz
Binary file test-data/StarFusion/reads_2.fq.gz has changed
diff -r 000000000000 -r a530fa18e9e8 tool-data/ctat_genome_resource_libs.loc.sample
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/tool-data/ctat_genome_resource_libs.loc.sample Tue Jul 17 11:51:50 2018 -0400
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+# This file lists the locations of CTAT Genome Resource Libraries
+# Usually there will only be one library, but it is concievable
+# that there could be multiple libraries.
+# This file format is as follows
+# (white space characters are TAB characters):
+#
+#
+# value is a unique id
+# name is the display name
+# path is the directory where the genome resource lib files are stored
+#
+#ctat_genome_resource_libs.loc could look like:
+#
+#GRCh38_v27_CTAT_lib_Feb092018 CTAT_GenomeResourceLib_GRCh38_v27_CTAT_lib_Feb092018 /path/to/ctat/genome/resource/lib/directory
+#
diff -r 000000000000 -r a530fa18e9e8 tool_data_table_conf.xml.sample
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/tool_data_table_conf.xml.sample Tue Jul 17 11:51:50 2018 -0400
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