********* Changelog ********* Greengenes T2T - 12_8 ===================== New Features ------------ * Workflow tools refactored to work towards standarized releases * Chimera checking now uses Bellerophon and Chimera Slayer targeting gross chimeras * Various deliverables now available, please see 00README * Taxon names, in particular candidate phyla, are sync'd with Silva Changes ------- * prokMSA_id has been depreceated in preparation for supporing 18S sequences. The analogous field is known as GG_ID. If a sequence previously had a prokMSA_id, it was retained as its corresponding GG_ID * Additional fields are now tracked in the Greengenes records, including chimeric information. * Taxonomy decoration is based off of the 99% OTU tree * The Greengenes source code is now under the GPL and available from https://github.com/greengenes/Greengenes. NOTE: this code does not yet provide the full workflow and is an active development project * Greengenes is now controlled by the Greengenes Consortium represented by individuals at the BioFrontiers Institute at CU-Boulder in the USA, the Australian Centre for Ecogenomics at the University of Brisbane in Australia and Second Genome in the USA. Bug Fixes --------- * The percent invariant filter is now being used. The previous release did not drop sequences that varied against known invariant positions resulting in incorrect grouping within the topology.