GOgetter: A pipeline for summarizing and visualizing GO slim annotations for plant genetic data.

ABSTRACT:

Premise

The functional annotation of genes is a crucial component of genomic analyses. A common way to summarize functional annotations is with hierarchical gene ontologies, such as the Gene Ontology (GO) Resource. GO includes information about the cellular location, molecular function(s), and products/processes that genes produce or are involved in. For a set of genes, summarizing GO annotations using pre-defined, higher-order terms (GO slims) is often desirable in order to characterize the overall function of the data set, and it is impractical to do this manually.

Methods and results

The GOgetter pipeline consists of bash and Python scripts. From an input FASTA file of nucleotide gene sequences, it outputs text and image files that list (1) the best hit for each input gen

SUBMITTER: Sessa EB 

PROVIDER: S-EPMC10439822 | biostudies-literature | 2023 Jul-Aug

REPOSITORIES: biostudies-literature