Overview #

Designed and developed reproducible workflows for automated analysis of Nanopore DNA and RNA sequencing data in local and HPC environments.

Problem #

Nanopore sequencing genereates large and heterogeneous datasets requiring multi-step processing.

Solution #

Developed modular Snakemake pipelines for automated and reproducible DNA and RNA sequencing analysis, ready to run in both local settings and HPC clusters.

Stack #

Python · R · Snakemake · Apptainer · conda · HPC · SLURM · Linux · Bash · Git

Impact #

Easier, standardized and reproducible processing of Nanopore data.
Suitable for small workstations and computing clusters.
Applied on real-life biomedical projects.

P. Garrido-Rodríguez, “Aplicación de la bioinformática en la descripción y resolución de patologías hematológicas y mecanismos biológicos relacionados,” Ph.D dissertation, Universidad de Murcia, Spain, 2025.

URL: my thesis | https://hdl.handle.net/10201/152160

Rojo-Carrillo, J. J., Garrido-Rodríguez, P., Llamas-López, M., Cifuentes-Riquelme, R., Padilla, J., Ramos-Molina, B., Lozano, ML., de la Morena-Barrio, B., de la Morena-Barrio, ME. & Corral, J. (2024). Landscape of antisense genes in the human genome and identification of new human hepatic antisense RNAs by long-read sequencing. BMC genomics, 25(1), 1148.

DOI: 10.1186/s12864-024-11017-3

Repository #

GitHub: nanopore_dna | nanopore_rna