Author

V. Bystrý

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Open access Oct 2026

PerSeqPIPE: Nextflow workflow for per-sequence analysis of small RNA-sequencing data

Abstract Summary Small RNA sequencing enables high-throughput profiling of diverse small non-coding RNAs, but their complex biology creates substantial bioinformatic challenges. Conventional gene-centric pipelines often discard multi-mapping reads or impose arbitrary feature assignments, leading to biased quantificatio...

K. Trachtová, D. Al Tukmachi, V. Bystrý et al. · Bioinformatics Advances · 0 citations

Open access Aug 2026

SeqUIaSCOPE: multi-omics data integration platform for single-patient clinical oncology pathway exploration

The SeqUIaSCOPE platform combines molecular-level validation via embedded genome browsing with systems-level interpretation through dynamic pathway visualization, enabling geneticists to assess how alterations converge across biological networks.

Kateřina Jurásková, P. Pokorna, Kristián Kováč et al. · Bioinformatics · 0 citations

Open access Aug 2026

PUDU (pipeline for universal diversity unveiling): an accessible end-to-end workflow for taxonomic profiling and ecological visualization of environmental microbiomes across amplicon, shotgun, and long-read sequencing

PUDU (Pipeline for Universal Diversity Unveiling), a modular Snakemake workflow that supports amplicon (short-read 16S), shotgun metagenomics (WGS), and long-read 16S analyses from raw reads to standardized outputs for downstream microbial ecology, is presented.

Alejandro Medaglia-Mata, Pablo Rojas-Rodríguez, V. Bystrý et al. · Frontiers in Bioinformatics · 0 citations