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SMRT Pipe tools
fripp edited this page Feb 12, 2013
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Tools are programs that run as part of SMRT Pipe. A module, such as P_Mapping, can call several tools (such as the mapping tools summarizeCoverage.py or compareSequences.py) to actually perform the underlying processing.
All the tools are located at $SEYMOUR_HOME/analysis/bin.
Use the --help option to see usage information for each tool. (Some tools are undocumented.)