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Tree [r222] /

File Date Author Commit
AmosCmp16Spipeline 2010-03-19 bhaas [r171] update
ChimeraSlayer 2011-05-19 bhaas [r222] update
NAST-iEr 2011-05-19 bhaas [r220] update
RESOURCES 2010-04-24 bhaas [r193] add
TreeChopper 2010-11-01 bhaas [r206] update
WigeoN 2010-11-01 bhaas [r207] update
__deprecated_BlastAssistedAssembler 2010-02-14 bhaas [r163] update, including deprecating software no longe...
__deprecated_bioname 2010-02-14 bhaas [r163] update, including deprecating software no longe...
docs 2011-05-19 bhaas [r221] update
Makefile 2010-04-24 bhaas [r191] renamed CSlayer utilities
README 2010-04-29 bhaas [r195] update

Read Me


The microbiomeutil/ package comes with the following:

	ChimeraSlayer/  ChimeraSlayer for chimera detection.

	NAST-iEr/  NAST-based alignment tool.

	WigeoN/    A reimplementation of the Pintail 16S anomaly detection utility 

	RESOURCES/  Reference 16S sequences and NAST-alignments that the tools above leverage.

Installation Requirements:

	The following software tools must be separately installed and made available via your standard PATH setting.



Building and Testing:

In the microbiomeutil/ directory, type:


The above will build the NAST-iEr alignment utility which is written in C.  The other tools are all written in Perl and so don't need to be compiled.

Run tests in the following order:

	make testNast

	make testChimeraSlayer

	make testWigeon

    (or just type:  'make test' and it will cycle through each separately)

Documentation for using the various tools is included on the microbiomeutil website:

Questions, comments, etc?  Please contact Brian Haas via