HapSolo: An optimization approach for removing secondary haplotigs during diploid genome assembly

Jan 1, 2021·
Edwin Solares
Edwin Solares
,
Yutao Tao
,
Anthony D. Long
,
Brandon S. Gaut
· 1 min read
Abstract
We present HapSolo, an optimization approach for removing secondary haplotigs during diploid genome assembly and scaffolding. HapSolo leverages artificial intelligence to improve genome assembly quality by identifying and removing redundant haplotype sequences.
Type
Publication
BMC Bioinformatics
publications

HapSolo is a computational tool that uses optimization approaches to identify and remove secondary haplotigs from diploid genome assemblies, improving assembly quality and contiguity.

Key Features

  • Optimization-based approach for haplotig identification
  • Improves genome assembly quality
  • Applicable to diverse diploid organisms
  • Presented at Vertebrate Genome Project (Invited Speaker, 2020)

Impact

This methodology has been adopted by genome assembly projects worldwide for improving the quality of diploid genome assemblies.

Bioinformatics Genome Assembly AI Methods
Edwin Solares
Authors
Edwin Solares (he/him)
Lecturer in Computer Science & Data Science
I am a computational biologist and data scientist bridging artificial intelligence, evolutionary genomics, and climate-resilient agriculture. My research leverages cutting-edge machine learning and bioinformatics to address global food security challenges in the face of rapid climate change. With publications in high-impact journals including Nature Plants, PNAS, and Genome Research (h-index: 7), I develop tools and methods that advance both computational science and real-world applications.
Authors
Yutao Tao
Authors
Anthony D. Long
Authors
Brandon S. Gaut