EggNOG database

A database of orthologous groups and functional annotation

[EggNOG database @eggnogdb]

@uniprot now linking to latest #orthology and functional #EggNOG data!

[EggNOG database @eggnogdb]

@harishk19931 thanks for reporting. It should be solved now.

[EggNOG database @eggnogdb]

@santos_jdn yes, sorry about that. One of our servers (physically) crashed and it will take a while to fully recover the service. No data loss, only the frontend servers are affected. We hope the issue is solved in a few days.

[Jaime Huerta-Cepas @jhcepas]

eggNOG-mapper v2 now in bioarxiv: https://t.co/5KwshSMb76 Awesome work by @cpcantalapiedra et al refactoring code for better performance on huge metagenomic datasets and adding new features: ORF calling, fast domain prediction, orthology reports & more! @BorkLab
@anahernandezpl1

[Jaime Huerta-Cepas @jhcepas]

Want to learn how to work with phylogenetic trees programmatically? From automating pipelines to advance custom visualization, we will try to cover most useful features of @etetoolkit in this virtual @eccb2020 tutorial. @fransua_serra

[Galaxy Project @galaxyproject]

"To make more of these tools accessible via scalable metaproteomics workflows, eggNOG-mapper and Unipept 4.0 were incorporated into the #usegalaxy platform."

[EggNOG database @eggnogdb]

@sminot @bio_norman no problem, many people asked the same by email. We will roll a 1.99 release asap. Bioconda packages do not depend on us though.

[EggNOG database @eggnogdb]

@sminot @bio_norman we could do a 1.99 release in a few days if that helps. but new features and benchmarks may still take us a few months...

[EggNOG database @eggnogdb]

@sminot @bio_norman v5 with eggnog-mapper-v2. There is no official release, basically bc we want to include a few new features. But current emapper code (master branch from github) using diamond mode is ready and stable. https://t.co/JVuayYlAzL is indeed based on emapper-v2 + eggnog v5.

[EggNOG database @eggnogdb]

The online version of eggNOG-mapper for genome & #metagenome #functional annotation based on #orthology calls from @eggnogdb v5 is now available for testing at https://t.co/JVuayYlAzL Now w/ more computing power thx to @denbiOffice . @BorkLab @jhcepas @DDDeCaF CPCantalapiedra

[EggNOG database @eggnogdb]

@sminot no, but we are updating eggnog-mapper source code and background databases at the moment. The offline diamond version is ready, and we are working on a new improved web service, so we are close to official releasing.

[EggNOG database @eggnogdb]

@Celeste_SPT @eggnogsssss @senor_eggnogs @the_eggnogs @EggnogsSenor @eggnogs_senor @livuniITM @LJMU @LivUni @MerseyPolice no, eggnogdb is just a scientific database (https://t.co/13Tqp1pi25). The name stands for Evolutionary Genealogy of Genes: Non supervised Orthologous Groups.

[EggNOG database @eggnogdb]

@sminot we are now working on updating eggnog-mapper (offline version), probably ready in a few weeks. Bulk downloads available in a few days, we are transferring data to the main severs right now.

[Biotweeps @biotweeps]

Then you can annotate the genes. Basic BLAST will work in the sense that it will give you some results.

However, we found that filtering the results using orthology gives better results. This can be done with eggnog-mapper (from @jhcepas)

https://t.co/z0AN6Jzhbl

[de.NBI / ELIXIR-DE @denbiOffice]

Second session of #denbicloudum: Liren, @lukas_jelonek, @jhcepas and @sneumannoffice present #Spark, @nextflowio, @eggnogdb mapper and @PhnmlH2020

[EggNOG database @eggnogdb]

a network problem was affecting some eggnog services over the last days. They should be fixed now!

[Jaime Huerta-Cepas @jhcepas]

Interested in building tools based on @eggnogdb and @etetoolkit for analysis and visualization of single cell RNAseq data collected from diverse marine animals? check this offer at @EMBL (Arendt's lab) in collaboration with our group at @CBGP_Madrid. https://t.co/zFbBHGbugc

[EggNOG database @eggnogdb]

@luispedrocoelho @sminot @SilasKieser @iprophage @torstenseemann we use some tricks to accelerate eggnog mapper computations on very large datasets. 5M genes using diamond mode should be no problem. some of those tricks here: https://t.co/8c88CoBqCf

[EggNOG database @eggnogdb]

@sminot @torstenseemann @iprophage yes, we are working on eggnog 5.0 at the moment, which will double the number of genomes, increase taxonomic granularity and add some new features.

[EggNOG database @eggnogdb]

nice use of @eggnogdb and eggnog-mapper for functional annotation and orthology prediction in single-cell transcriptomics of non-model species. https://t.co/FYwcCTgcX3

[Nicolas Robine @notSoJunkDNA]

Evolution of pallium, hippocampus, and cortical cell types revealed by single-cell transcriptomics in reptiles
https://t.co/VXUkcY9l8P

[Jaime Huerta-Cepas @jhcepas]

Two more job offers: Research Technician to work in tools such as @etetoolkit or @eggnogdb (deadline very close), and Postdoc in metagenomics/phylogenomics. Also last weeks for applying to the the PhD INPhiNIT program! Stay tuned at: https://t.co/ROShqZhfA9 https://t.co/siuzZE851E