functional-annotation-of-sequences/main
v0.2

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Workflow Type: Galaxy

Tests Passing

This workflow performs functional annotation of protein and nucleotide sequences (including CDS, genomes and metagenomes) using eggNOG-mapper and InterProScan, supports collection inputs and optional analysis steps, and can assess KEGG pathway completeness.

SEEK ID: https://workflowhub.eu/workflows/2118?version=1

Inputs

ID	Name	Description	Type
InterProScan mode select	InterProScan mode select	n/a	string
Run InterProScan	Run InterProScan	n/a	boolean
Run eggNOG + completeness calculation	Run eggNOG + completeness calculation	n/a	boolean
Sequence collection	Sequence collection	n/a	File[]
eggNOG mode select	eggNOG mode select	n/a	string

Steps

ID	Name	Description
5	Functional annotation of protein sequences subworkflow	n/a
6	Extract element identifiers	toolshed.g2.bx.psu.edu/repos/iuc/collection_element_identifiers/collection_element_identifiers/0.0.2
7	Map parameter value	toolshed.g2.bx.psu.edu/repos/iuc/map_param_value/map_param_value/0.2.0
8	Pick parameter value	toolshed.g2.bx.psu.edu/repos/iuc/pick_value/pick_value/0.2.0
9	InterProScan	InterProScan is a tool that analyses each protein sequence from our annotation to determine if they contain one or several of the signatures from InterPro. toolshed.g2.bx.psu.edu/repos/bgruening/interproscan/interproscan/5.59-91.0+galaxy3
10	Cut	Cut1
11	Filter Tabular	toolshed.g2.bx.psu.edu/repos/iuc/filter_tabular/filter_tabular/3.3.1
12	Text reformatting	toolshed.g2.bx.psu.edu/repos/bgruening/text_processing/tp_awk_tool/9.5+galaxy3
13	Collapse Collection	toolshed.g2.bx.psu.edu/repos/nml/collapse_collections/collapse_dataset/5.1.0
14	Paste	Paste1
15	Calculate KEGG Pathways completeness	toolshed.g2.bx.psu.edu/repos/iuc/kegg_pathways_completeness/kegg_pathways_completeness/1.3.0+galaxy0