Software

Open-source research software by Natalia Gumińska: R packages for nanopore direct RNA sequencing and laboratory data infrastructure.

R packages for nanopore direct RNA sequencing, other software, and the databases that keep laboratory data usable. Most of it is open source under LRB-IIMCB, with personal projects on my GitHub.

Bioinformatic tools

ninetails author

Detects non-adenosine residues in poly(A) tails from Oxford Nanopore direct RNA reads, using a convolutional network on signal-derived images. Published in Nature Communications (2025).

R, Nanopore, deep learning, signal analysis

Repository Documentation Paper

nanotail2 author

Poly(A) tail length analysis: distributions, comparisons between conditions, and publication figures.

R, poly(A), statistics, visualisation

Organisation

NanoQuRe contributor

Quality control reports for nanopore sequencing runs.

R, quality control, reporting

Repository

rDNAmine co-author

Analysis of long repetitive rDNA sequences in Oxford Nanopore reads. Described in Yeast (2026).

Shell, long reads, rDNA

Repository Paper

Laboratory data infrastructure

Relational schemas for samples, libraries, sequencing runs and their metadata, with role-based access and an audit trail. Built and maintained for the laboratory rather than released publicly.

Publications Stack GitHub

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