Laura Luebbert

This study compares Seurat and Scanpy, finding significant differences in their scRNA-seq analysis outputs, comparable to low sequencing depth or cell coverage.

This paper develops a machine-automated approach to extract results from scientific papers and evaluates it using the eLife corpus, highlighting the need for machine-readable scientific dissemination.

varseek improves variant detection in challenging cases like insertions, deletions, and low-coverage data using a reference-based approach.

The paper detects viral sequences in single-cell data to identify novel viruses affecting host gene expression in rhesus macaques.

Delphy provides a fast, scalable Bayesian phylogenetic analysis tool for outbreak tracking, achieving 1,000x speedups while maintaining state-of-the-art accuracy.

The paper describes using kallisto, bustools, and kb-python to quantify RNA-seq data from bulk, single-cell, and single-nucleus samples.

gget elm enables fast, scalable querying of Eukaryotic Linear Motifs from the ELM database using local computations.

Geospatial exploratory statistics, including local, bivariate and multivariate spatial methods, are packaged for spatial omics behind one interface, with matched R/Bioconductor and Python implementations.

This study shows that a learned motor behavior can recover after chronic disruption of inhibitory circuits, with neuronal activity permanently altered but song recovery possible without relying on learning circuits.

This study measures the temporal dynamics of SSRIs in different cellular compartments and shows they accumulate in membranes and organelles, suggesting new roles in therapeutic effects and discontinuation syndrome.

gget provides a command-line tool and Python package for efficient querying of genomic reference databases like Ensembl.