Joseph Matthew Rich

fastQpick generates bootstrap replicates of FASTQ reads for uncertainty quantification in sequencing data.

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

CellSweep removes technical contamination from single-cell genomics data, improving accuracy in downstream analysis.

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

SpatialFeatureExperiment provides a Bioconductor package for handling spatial-omics data, integrating spatial analysis with single-cell omics workflows.