This review commemorates the 40th anniversary of DNA sequencing, a period in which we
have already witnessed multiple technological revolutions and a growth in scale from a few …

Fiji is a distribution of the popular open-source software ImageJ focused on biological-image
analysis. Fiji uses modern software engineering practices to combine powerful software …

Since its initial release in 2000, the human reference genome has covered only the
euchromatic fraction of the genome, leaving important heterochromatic regions unfinished …

The Illumina DNA sequencing platform generates accurate but short reads, which can be
used to produce accurate but fragmented genome assemblies. Pacific Biosciences and …

Long-read single-molecule sequencing has revolutionized de novo genome assembly and
enabled the automated reconstruction of reference-quality genomes. However, given the …

While metagenomics has emerged as a technology of choice for analyzing bacterial
populations, the assembly of metagenomic data remains challenging, thus stifling biological …

While genome assembly projects have been successful in many haploid and inbred
species, the assembly of noninbred or rearranged heterozygous genomes remains a major …

We present a hierarchical genome-assembly process (HGAP) for high-quality de novo
microbial genome assemblies using only a single, long-insert shotgun DNA library in …

Motivation: Counting the number of occurrences of every k-mer (substring of length k) in a
long string is a central subproblem in many applications, including genome assembly, error …

The human genome holds an extraordinary trove of information about human development,
physiology, medicine and evolution. Here we report the results of an international …