Abstract: Background: Efficient and effective genome scaffolding tools are still in high demand for generating reference-quality assemblies. While long read data itself is unlikely to create a chromosome-scale assembly for most eukaryotic species, the inexpensive Hi-C sequencing technology, capable of capturing the chromosomal profile of a genome, is now widely used to complete the task. However, the existing Hi-C based scaffolding tools either require a priori chromosome number as input, or lack the ability to build highly continuous scaffolds. Results: We design and develop a novel Hi-C based scaffolding tool, pin_hic, which takes advantage of contact information from Hi-C reads to construct a scaffolding graph iteratively based on N-best...
We present RaGOO, a reference-guided contig ordering and orienting tool that leverages the speed and...
High throughput DNA sequencing technologies are fuelling an accelerating trend to assemble genomes d...
The advent of high-throughput DNA sequencing technologies has set off an expanding trend in genome a...
Abstract: Background: Efficient and effective genome scaffolding tools are still in high demand for ...
BACKGROUND: Efficient and effective genome scaffolding tools are still in high demand for generating...
Long read technologies have revolutionized de novo genome assembly by generating contigs orders of m...
Scaffolding genomes into complete chromosome assemblies remains challenging even with the rapidly in...
Hi-C exploits contact frequencies between pairs of loci to bridge and order contigs during genome as...
Hi-C exploits contact frequencies between pairs of loci to bridge and order contigs during genome as...
Thesis (Ph.D.)--University of Washington, 2022High-quality reference genomes are once again in vogue...
Thesis (Ph.D.)--University of Washington, 2014The study of genomics is made possible by the creation...
Motivation: The increasing availability of second-generation high-throughput sequencing (HTS) techno...
Despite the advancement of DNA-sequencing technology, assembly of complex genomes remains a major ch...
Background: Genome assembly is typically a two-stage process: contig assembly followed by the use o...
The intricate folding of chromatin enables living organisms to store genomic material in an extremel...
We present RaGOO, a reference-guided contig ordering and orienting tool that leverages the speed and...
High throughput DNA sequencing technologies are fuelling an accelerating trend to assemble genomes d...
The advent of high-throughput DNA sequencing technologies has set off an expanding trend in genome a...
Abstract: Background: Efficient and effective genome scaffolding tools are still in high demand for ...
BACKGROUND: Efficient and effective genome scaffolding tools are still in high demand for generating...
Long read technologies have revolutionized de novo genome assembly by generating contigs orders of m...
Scaffolding genomes into complete chromosome assemblies remains challenging even with the rapidly in...
Hi-C exploits contact frequencies between pairs of loci to bridge and order contigs during genome as...
Hi-C exploits contact frequencies between pairs of loci to bridge and order contigs during genome as...
Thesis (Ph.D.)--University of Washington, 2022High-quality reference genomes are once again in vogue...
Thesis (Ph.D.)--University of Washington, 2014The study of genomics is made possible by the creation...
Motivation: The increasing availability of second-generation high-throughput sequencing (HTS) techno...
Despite the advancement of DNA-sequencing technology, assembly of complex genomes remains a major ch...
Background: Genome assembly is typically a two-stage process: contig assembly followed by the use o...
The intricate folding of chromatin enables living organisms to store genomic material in an extremel...
We present RaGOO, a reference-guided contig ordering and orienting tool that leverages the speed and...
High throughput DNA sequencing technologies are fuelling an accelerating trend to assemble genomes d...
The advent of high-throughput DNA sequencing technologies has set off an expanding trend in genome a...