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Morgan Langille edited this page May 11, 2018
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Welcome to the PICRUSt2 website! Here you will find descriptions of the scripts, installation instructions, and workflows. See the right side-bar for details.
PICRUSt2 includes these and other improvements:
- Allow users to predict functions for de novo clustered sequences (e.g. DADA2 and deblur output) by taking a sequence placement approach
- Updated pre-calculated files with additional genomes and gene families.
- Addition of hidden-state prediction algorithms from the
castor
R package. - Allows output of MetaCyc ontology predictions that will be comparable with common shotgun metagenomics outputs.
- Inference of pathway abundances now relies on MinPath, which makes these predictions more stringent.
PICRUSt2 wraps a number of tools to generate functional predictions from amplicon sequences. If you use PICRUSt2 you also need to cite the below tools.
- PaPaRa
- EPA-NG
- gappa, which is based on the genesis library.
- MinPath - A modified version of this tool from the HMP project is also packaged with PICRUSt2. This tool was releasd under the GNU General Public License. Source code.
Please first check our FAQ if you have any questions about PICRUSt2.
For other general questions and comments about PICRUSt2 please search the PICRUSt google group. If the question has not been previously answered then please make a new thread.
To report a bug or to make a feature request please make a new issue at the top of this page.