7 papers · ranked by Valyu relevance
Salma M. Thalji, Manuel Spitschan
The dim-light melatonin onset (DLMO) is a commonly used circadian phase marker indicating the start time of evening melatonin synthesis in humans. Several quantitative techniques have been developed to determine DLMO from melatonin time-series, including fixed- or variable-threshold techniques and the hockey-stick…
Granville J. Matheson, Johan Lundberg, Martin Gärde, Emma R. Veldman + 4 more
PET analysis is conventionally performed as a two-stage process of quantification followed by analysis. We recently introduced SiMBA (Simultaneous Multifactor Bayesian Analysis), a hierarchical model that performs quantification and analysis for all brain regions of all individuals at once, and in so doing improves…
Taher Mun, Naga Sai Kavya Vaddadi, Ben Langmead
We present a new method and software tool called rowbowt that applies a pangenome index to the problem of inferring genotypes from short-read sequencing data. The method uses a novel indexing structure called the marker array. Using the marker array, we can genotype variants with respect from large panels like the 1000…
Duc Nguyen, Erin L. Rich, Joni D. Wallis, Kenway Louie + 1 more
The decisional reference point serves as a hidden benchmark for evaluating options in decision-making. Despite extensive behavioral evidence for the existence of the reference point, its neural instantiation remains unclear. To identify reference point encoding at both the single-neuron and population levels, we…
Jason Fan, Jamshed Khan, Giulio Ermanno Pibiri, Rob Patro
The reference indexing problem for k-mers is to pre-process a collection of reference genomic sequences ℛ so that the position of all occurrences of any queried k-mer can be rapidly identified. An efficient and scalable solution to this problem is fundamental for many tasks in bioinformatics. In this work, we introduce…
George Dimitriadis, Ella Svahn, Andrew MacAskill, Athena Akrami
To realise a research project idea, an experimenter faces a series of conflicting design and implementation considerations, regarding both its hardware and software components. For instance, the ease of implementation, in time and expertise, should be balanced against the ease of future reconfigurability and number of…
David S. Cerutti, Rafal Wiewiora, Simon Boothroyd, Woody Sherman
The Structure and TOpology Replica Molecular Mechanics (STORMM) code is a next-generation molecular simulation engine and associated libraries optimized for performance on fast, multicore central processor units (CPUs) and graphics processing units (GPUs) with independent memory and tens of thousands of threads. STORMM…