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If you manage phylogenetic data, Bio::NEXUS can make your life easier with a library and ready-made tools to manipulate and visualize NEXUS files (see http://www.molevol.org/nexplorer and http://search.cpan.org/dist/Bio-NEXUS/doc/Tutorial.pod).
ScriptManager is a command-line tool for executing and managing plain SQL scripts. ScriptManager was written in pure Java and requires JDBC driver to connect to any JDBC-compliant database.
...If there's demand, I'll include a converter for old scripts, either as a filter or command-line interpreter so you'll be able to pipe through an additional step or use `convert_old_procb "MY-OLD-SCRIPT"` or something like that.
Provides a linux/unix command line tool to "scrub" comma delimited files. Removing extra spaces, mr. dr. etc. Also removing duplicate records based on a comparison of columns/fields. It's a bash script using awk, cut, join and nl. Using a little perl