v1.1.alpha04: bugfix and new subcommands

26 Mar 2011, by Erick

Some nice new sequence parsers, which play nicely with the strange line endings put out by some alignment programs. guppy merge to merge multiple placefiles. The bug in guppy classify which resulted in only sequence per place file being classified is now fixed. The JSON format is now compatible with R’s JSON module. Some of the visualizations available in the old placeviz is now available in guppy via the classic, tog, and sing subcommands. Aaron came up with a very powerful filter subcommand to manipulate place files– if you can’t do what you want with that, it’s time for you to use SQL. There’s a merge subcommand in now too.

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