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Related Concept Videos

Accelerators01:17

Accelerators

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Accelerators in concrete serve as admixtures to speed up the hardening process, enabling the concrete to achieve early strength faster. Although accelerators do not necessarily impact the time it takes concrete to set, they reduce this time in practice. A common accelerator is calcium chloride, which is particularly useful for hastening early strength development in cold weather or for rapid repair jobs that require quick heat generation after mixing.
The effectiveness of calcium chloride can...
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Average Acceleration01:30

Average Acceleration

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The importance of understanding acceleration spans our day-to-day experiences, as well as the vast reaches of outer space and the tiny world of subatomic physics. In everyday conversation, to accelerate means to speed up. For instance, we are familiar with the acceleration of our car; the harder we apply our foot to the gas pedal, the faster we accelerate. The greater the acceleration, the greater the change in velocity over a given time. Acceleration is widely seen in experimental physics. In...
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Instantaneous Acceleration01:16

Instantaneous Acceleration

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Acceleration is in the direction of the change in velocity, but it is not always in the direction of motion. When an object slows down, its acceleration is opposite to the direction of its motion. Although commonly referred to as deceleration, this causes confusion in our analysis as deceleration is not a vector, and does not point to a specific direction with respect to a coordinate system. Therefore, the term deceleration is not used. For example, when a subway train slows down, it...
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Acceleration Vectors01:30

Acceleration Vectors

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In everyday conversation, accelerating means speeding up. Acceleration is a vector in the same direction as the change in velocity, Δv, therefore the greater the acceleration, the greater the change in velocity over a given time. Since velocity is a vector, it can change in magnitude, direction, or both. Thus acceleration is a change in speed or direction, or both. For example, if a runner traveling at 10 km/h due east slows to a stop, reverses direction, and continues their run at 10 km/h...
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Accelerating Fluids01:17

Accelerating Fluids

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When a fluid is in constant acceleration, the pressure and buoyant force equations are modified. Suppose a beaker is placed in an elevator accelerating upward with a constant acceleration, a. In the beaker, assume there is a thin cylinder of height h with an infinitesimal cross-sectional area, ΔS.
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Acceleration due to Gravity on Other Planets01:24

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The gravitational acceleration of an object near the Earth's surface is called the acceleration due to gravity. It can be measured by conducting simple experiments on Earth. However, such an experiment is impossible to conduct on the surface of other planets.
Astronomical observations are thus used to measure the acceleration due to gravity on other planets. This can be determined by observing the effect of a planet's gravity on objects close to it. The crucial factor that helps in this...
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Induction of Diffuse Axonal Brain Injury in Rats Based on Rotational Acceleration
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BitMapper2: A GPU-Accelerated All-Mapper Based on the Sparse q-Gram Index.

Haoyu Cheng, Yong Zhang, Yun Xu

    IEEE/ACM Transactions on Computational Biology and Bioinformatics
    |July 12, 2018
    PubMed
    Summary
    This summary is machine-generated.

    BitMapper2 is a new GPU-accelerated read mapper designed for next-generation sequencing (NGS) data. It efficiently identifies all mapping locations for each read, outperforming existing methods in speed and memory usage.

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    Area of Science:

    • Bioinformatics
    • Computational Biology
    • Genomics

    Background:

    • Next-generation sequencing (NGS) generates vast read datasets, necessitating faster read mapping tools.
    • Existing all-mappers, designed to find all possible read locations, are often slow or memory-intensive.

    Purpose of the Study:

    • To develop BitMapper2, a novel GPU-accelerated read mapper for efficient identification of all mapping locations of NGS reads.
    • To address the performance limitations of current all-mapper tools.

    Main Methods:

    • Developed BitMapper2 utilizing a sparse q-gram index to optimize GPU parallel processing.
    • Designed GPU-specific filtration and verification components to enhance performance.
    • Ensured time and memory efficiency even without GPU acceleration.

    Main Results:

    • BitMapper2 demonstrates significantly faster performance compared to state-of-the-art all-mappers.
    • The tool requires less memory, making it more accessible.
    • Achieved high efficiency through optimized GPU architecture utilization.

    Conclusions:

    • BitMapper2 offers a superior solution for all-mapping NGS reads, balancing speed and memory efficiency.
    • The sparse q-gram index and GPU-specific design are key to its performance gains.
    • BitMapper2 is a valuable tool for genomic data analysis.