HPC-T-Annotator: an HPC tool for de novo transcriptome assembly annotation.

ABSTRACT:

Background

The availability of transcriptomic data for species without a reference genome enables the construction of de novo transcriptome assemblies as alternative reference resources from RNA-Seq data. A transcriptome provides direct information about a species' protein-coding genes under specific experimental conditions. The de novo assembly process produces a unigenes file in FASTA format, subsequently targeted for the annotation. Homology-based annotation, a method to infer the function of sequences by estimating similarity with other sequences in a reference database, is a computationally demanding procedure.

Results

To mitigate the computational burden, we introduce HPC-T-Annotator, a tool for de novo transcriptome homology annotation on high performance computing (

SUBMITTER: Arcioni L 

PROVIDER: S-EPMC11340092 | biostudies-literature | 2024 Aug

REPOSITORIES: biostudies-literature