Functional annotation of prokaryotic genomes

• COG

  1 9 10.0 Python

  Scripts and steps for making a consolidated COG database file for tools like DIAMOND. (by transcript)

You can also use the COG database for functional description of your data. It is easy to use with Diamond like this https://github.com/transcript/COG

• mantis

  6 51 3.1 Python

  A package to annotate protein sequences (by PedroMTQ)

Thanks a lot! Will definitely try it out. Another question: Does Mantis+eggNOG annotate the genes with eggNOG-ortholog-ids? More generally, what are the resulting annotation types? (pfam, GO, KO, EC and description are listed, how about KR, BiGG, brite and cazy?)

• InfluxDB

  www.influxdata.com featured

  Power Real-Time Data Analytics at Scale. Get real-time insights from all types of time series data with InfluxDB. Ingest, query, and analyze billions of data points in real-time with unbounded cardinality.

  

• refdb_generator

  1 4 0.0 Python

  Automated creation of a few different HMM and diamond reference

atm BIGG is not linked to any of the databases, but I do have another repo with BIGG genes (diamond DB) and BIGG reactions (HMMs). You could then just add these to the mantis config file (see here how) and use them alongside the other references.

• UniFuncNet

  2 10 0.0 Python

  A multi-reference network annotation tool to support omics analysis

It is also possible to link BIGG to kofam (cross-linking was done with this repo), and while I do have this data I did not include it in mantis (feel free to contact me and I can send you the data).

Suggest a related project