Beyond Pango: The future of virus lineage classification
Keeping pace with ever-changing viruses is a challenge. This study unveils an automated system for classifying viral lineages based on genetics, offering a faster and more objective approach
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SHAPE directed RNA folding with the ViennaRNA Package
The ViennaRNA Package supports three published approaches for SHAPE-guided RNA structure prediction. Here we evaluate and compare the methods by Deigan, Zarringhalam, and Washietl
Building efficient NGS analysis pipelines with ViennaNGS
ViennaNGS is a workflow system for building efficient NGS data analysis pipelines, integrating high-level routines and wrapper functions for common NGS processing tasks
How to efficiently explore the lower portion of RNA energy landscapes
Discrete energy landscapes provide a valuable means for analyzing non-equilibrium properties of biopolymers. In this study we propose a memory-efficient approach for local flooding of the lower portion of an RNA folding landscape
Bacterial transcription start site annotation from dRNA-seq data
A RESTful web service and standalone application for automated de-novo annotation of bacterial transcription start sites from dRNA-seq data
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