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Repository eggnog_mapper
Name: eggnog_mapper
Owner: galaxyp
Synopsis: eggnog-mapper fast functional annotation of novel sequences
eggnog-mapper is a tool for fast functional annotation of novel sequences \
(genes or proteins) using precomputed eggNOG-based orthology assignments

https://github.com/jhcepas/eggnog-mapper
Development repository: https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/eggnog_mapper/eggnog_mapper
Link to this repository revision: https://toolshed.g2.bx.psu.edu/view/galaxyp/eggnog_mapper/844fa988236b
Clone this repository: hg clone https://toolshed.g2.bx.psu.edu/repos/galaxyp/eggnog_mapper
Type: unrestricted
Revision: 13:844fa988236b
This revision can be installed: True
Times cloned / installed: 753

Repository README files - may contain important installation or license information

Readme files
This folder contains three tools: 1. eggnogg_mapper: which runs the search and annotation phase in a single tool 2. eggnogg_mapper_search: which implements the search phase 3. eggnogg_mapper_annotate: which implements the annotation phase While the search phase of eggnog_mapper is very CPU intense and is efficient also for a larger number of threads, the annotation phase is very IO intensive and can be very inefficient (depending on the configuration, e.g. if the reference data is located on a slow partition). While for most applications eggnogg_mapper will be sufficient to separate the two phases can be more efficient: - sending eggnogg_mapper_search to a destination using many threads - and eggnogg_mapper_annotate to a destination using a small number of threads Admins can choose to set the environment variable ``EGGNOG_DBMEM=--dbmem`` which will copy the complete EggNOG annotation DB into memory which is usually much faster than using multiple cores (but needs approx. 37GB of RAM).

Contents of this repository

Valid tools - click the name to preview the tool and use the pop-up menu to inspect all metadata
Name Description Version Minimum Galaxy Version
functional sequence annotation by orthology 2.1.8+galaxy3 22.01
search phase 2.1.8+galaxy3 22.01
annotation phase 2.1.8+galaxy3 22.01

Categories
Proteomics - Tools enabling the study of proteins