Taher Mun

Minimizing Reference Bias with an Impute-First Approach

The paper introduces an impute-first alignment framework that improves variant calling accuracy and efficiency by using a personalized diploid reference.

Pangenomic genotyping with the marker array

The paper introduces rowbowt, a tool for pangenomic genotyping using a marker array to improve accuracy and efficiency over existing methods.

LevioSAM: Fast lift-over of alternate reference alignments

LevioSAM lifts SAM/BAM alignments between references using VCF files, achieving faster performance with multi-threading.

Reducing reference bias using multiple population reference genomes

The paper introduces a reference flow alignment method that reduces reference bias using multiple population reference genomes, achieving similar accuracy to graph aligners with lower memory usage and faster speed.

Efficient Construction of a Complete Index for Pan-Genomics Read Alignment

The paper introduces an efficient method for constructing a complete index for pan-genomics read alignment, improving memory and time efficiency over existing methods.

Prefix-Free Parsing for Building Big BWTs

The paper introduces a preprocessing algorithm called prefix-free parsing to efficiently build compressed Burrows-Wheeler Transform indexes for large genomic datasets.