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Adam M. Novak

Researcher at University of California, Santa Cruz

Publications -  56
Citations -  3548

Adam M. Novak is an academic researcher from University of California, Santa Cruz. The author has contributed to research in topics: Genome & Reference genome. The author has an hindex of 21, co-authored 51 publications receiving 2166 citations. Previous affiliations of Adam M. Novak include University of Oxford & Harvey Mudd College.

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Toil enables reproducible, open source, big biomedical data analyses

TL;DR: It is envisage that in future individual research laboratories, or clusters of colocated laboratories, will have in-house, low-cost automation work cells but will access DNA foundries via the cloud to carry out complex experimental workflows and accelerate the development and sharing of standardized protocols and metrology standards.
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Variation graph toolkit improves read mapping by representing genetic variation in the reference.

TL;DR: Vg as discussed by the authors is a toolkit of computational methods for creating, manipulating, and using these structures as references at the scale of the human genome, which provides an efficient approach to mapping reads onto arbitrary variation graphs using generalized compressed suffix arrays, with improved accuracy over alignment to a linear reference.
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Genome graphs and the evolution of genome inference

TL;DR: This work surveys various projects underway to build and apply graph-based structures-which it is referred to as genome graphs-and discusses the improvements in read mapping, variant calling, and haplotype determination that genome graphs are expected to produce.
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Computational pan-genomics: status, promises and challenges.

Tobias Marschall, +61 more
TL;DR: Already available approaches to construct and use pan-genomes are examined, the potential benefits of future technologies and methodologies are discussed, and open challenges from the vantage point of the above-mentioned biological disciplines are reviewed.