Draft recon - gws_gena

Typing name : TASK.gws_gena.DraftRecon001

Brick : gws_gena

Draft network reconstruction

DraftRecon task.

This task performs a draft reconstruction of a metabolic network using a list of EC numbers or taxonomy IDs.

In input, you need to provide at least a resource EC number Table or set the parameter "tax_id". You can also add a Biomass Reaction Table describing the composition of a cell (or organism) biomass.

Input

Table of ec numbers

2d excel like table

Optional

Table

2d excel like table

Optional

Table

Output

Network

Metabolic network

Network

Configuration

unique_name

Optional

The unique name of the network. Required to uniquely identify taxa in microbial communities

Type : string

Default value : jUqQ

tax_id

Optional

The NCBI taxonomy id. For example: `tax_id = 562` for E. Coli

Type : string

tax_search_method

Optional

If 'bottom_up', the algorithm will to traverse the taxonomy tree to search at higher taxonomy levels until a reaction is found. If `none`, the algorithm will only search at the given taxonomy level given by `tax_id`

Type : string

Default value : bottom_up