Published February 23, 2023
| Version 4.0.5
Software
Open
biobakery/MetaPhlAn: 4.0.5
Authors/Creators
- 1. University of Trento
- 2. Weill Cornell Medicine
- 3. Okinawa Institute of Science and Technology
- 4. University of Freiburg
- 5. INRA MetaGenoPolis
- 6. Edmund Mach Foundation
Description
Version 4.0.5 (Feb 23rd, 2023)
Database updates
- We just released the new vOct22 database
- Addition of ~200k new genomes
- 3,580 more SGBs than the vJan21
- 2,548 genomes considered reference genomes in vJan21 were relabelled as MAGs in NCBI -> 1,550 kSGBs in vJan21 are now uSGBs in vOct22
- Removed redundant reference genomes from the vJan21 genomic database using a MASH distance threshold at 0.1%
- Local reclustering to improve SGB definitions of oversized or too-close SGBs
- Improved GGB and FGB definitions by reclustering SGB centroids from scratch
- Improved phylum assignment of SGBs with no reference genomes at FGB level using MASH distances on amino acids to find the closest kSGB ### Changed features
- [StrainPhlAn] Improved StrainPhlAn's speed when running with the --print_clades_only option ### Missing features
- [MetaPhlAn] The GTDB taxonomic assignment for the vOct22 database is not available yet (expected release: end of Feb 2023)
- [MetaPhlAn] The phylogenetic tree of life for the vOct22 database is not available yet (expected release: TBD).
Files
biobakery/MetaPhlAn-4.0.5.zip
Files
(2.0 MB)
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Additional details
Related works
- Is supplement to
- https://github.com/biobakery/MetaPhlAn/tree/4.0.5 (URL)