Author
Indian Institute of Science BangaloreORCID 0000-0001-7687-4132Unclaimed ORCID profile · follow to get notified of new preprints
6 papers
Recent·Most cited
Ghanshyam Chandra, Vasimuddin Md, Sanchit Misra, Chirag Jain
This work optimizes whole-genome alignment for multi-core processors, improving speed by 1.6x to 7.2x across human, plant, and primate genomes without sacrificing accuracy.
Ghanshyam Chandra, William T. Doan, Daniel Gibney
DipGenie improves diploid genome phasing using pangenome graphs, achieving lower error rates and better structural variant detection than existing tools.
Ghanshyam Chandra, Md Helal Hossen, Stephan Scholz…·Chirag Jain
The paper introduces an integer programming framework for haplotype-resolved genotyping using pangenome graphs, achieving accurate MHC haplotype inference on low-coverage data.
Ghanshyam Chandra, Daniel Gibney, Chirag Jain
This paper develops haplotype-aware sequence alignment algorithms for pangenome graphs, showing improved consistency with ground-truth recombinations compared to haplotype-agnostic methods.
Jyotshna Rajput, Ghanshyam Chandra, Chirag Jain
The paper presents an exact algorithm for co-linear chaining on cyclic pangenome graphs, demonstrating improved accuracy over heuristic methods in aligning simulated long reads.
Ghanshyam Chandra, Chirag Jain
The paper develops a new chaining algorithm for aligning long reads to pangenome DAGs, achieving high precision with low unmapped reads.