Embedded Files
Python-based toolkit for analysis of recombination-associated mutagenic ssDNA during yeast meiosis. Associated with 2026 Nature Communications Publication.
Python-based toolkit for annotating mutation calls with their genomic context and for identifying specific mutation signatures, such as mutational patterns associated with APOBEC3A (A3A).
Python-based spin-off of NIEHS/P-MACD for discovery of mutation clusters which evaluates candidate mutation clusters as well as their sub-clusters against multiple p-value cutoffs. The package also provides basic tools for genome-wide mutation cluster visualization.
Python-based toolkit for exhaustive search of imperfect direct and inverted repeats in DNA sequences.
Mouse Skin Single Cell Atlas In collaboration with Dr. Nicole Recka and Van Otterloo Lab
Single cell gene expression and accesibility atlas of developing mouse skin
Add-on onto the Seaborn library that modifies Beeswarm class of plots (swarmplot or swarm) allowing points to overlap each other instead of placing overflow points into "gutters".
LOHness
Loss of Heterozygosity (LOH) breakpoint caller for Illumina WGS which builds an ad hoc low-noise SNP panel from cohort data. Created for analysis of highly heterozygous diploid genomes like Candida albicans.
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