Feb
20
2018
0
By admin_metaphors
2,286,510,661 homologs retrieved from 5,693,067 Maximum Likelihood trees for 2,435 species from 12 public repositories.
- Added new and updated previosly present repositories
- EggNOG update and added all divisions (previously only euNOG & KOG)
- Ensembl update (including Ensembl Genomes)
- Hogenom included
- OrthoMCL update
- PhylomeDB update
- TreeFAM update
- Fungal Orthogroups were deprecated due to small dabatase size and lack of updates
- Methodology changes:
- Species-oriented
- Gene-oriented
- Trees with multifucations included
- Evidence level now counting databases, to repositories ie. distinct phylomes
- Webserver changes
- New sequence information page
- ID information with links listed: internal, UniProt, external repositories
- Gene name and function
- GO function logo and GO functions
- Sequence in FASTA
- New tree information page
- Gene names accepted (with autocompletion)
- Species names accepted (with autocompletion)
- Functional tag clouds
- Rapid similarity search implemented
- RANDOM protein query for orthologs, sequence information and similarity search
- HTTP requests introduced
- Improved Python API (available unpon request)