Sebastian Will

RRIkinDP: Targeted RNA-RNA interaction kinetics

The paper introduces a targeted RNA-RNA interaction kinetics model to analyze kinetic properties of RNA-RNA interactions and identifies key features that influence interaction formation.

SparseRNAFolD: Sparse RNA pseudoknot-free Folding including Dangles

SparseRNAFolD improves RNA secondary structure prediction by reducing time and space complexity while including dangles contributions, outperforming LinearFold in memory use and speed for sequences up to 1000 bases.

CParty: Hierarchically Constrained Partition Functionof RNA Pseudoknots

CParty computes a hierarchically constrained partition function for pseudoknotted RNA structures in cubic time, enabling stochastic analysis of pseudoknotted RNA ensembles and revealing kinetic features of SARS-CoV-2 targets.

Bi-Alignments as Models of Incongruent Evolution of RNA Sequence and Structure

The paper introduces bi-alignments to model incongruent evolution of RNA sequence and structure, showing they are a special case of 4-way alignments and finding such incongruence is not rare in the Rfam database.

Bioconda: A sustainable and comprehensive software distribution for the life sciences

Bioconda provides a sustainable, comprehensive distribution of bioinformatics software using Conda for reproducible analysis across platforms.