StandEnA: a customizable workflow for standardized annotation and generating a presence-absence matrix of proteins.

ABSTRACT:

Motivation

Several genome annotation tools standardize annotation outputs for comparability. During standardization, these tools do not allow user-friendly customization of annotation databases; limiting their flexibility and applicability in downstream analysis.

Results

StandEnA is a user-friendly command-line tool for Linux that facilitates the generation of custom databases by retrieving protein sequences from multiple databases. Directed by a user-defined list of standard names, StandEnA retrieves synonyms to search for corresponding sequences in a set of public databases. Custom databases are used in prokaryotic genome annotation to generate standardized presence-absence matrices and reference files containing standard database identifiers. To showcase StandEnA, we appl

SUBMITTER: Chafra F 

PROVIDER: S-EPMC10336186 | biostudies-literature | 2023

REPOSITORIES: biostudies-literature