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Achievement: StarstruckAchievement: Arctic Code Vault Contributor

Achievements

Achievement: StarstruckAchievement: Arctic Code Vault Contributor

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@CMU-SAFARI @BilkentCompGen

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mealser/README.md

Hi there 👋

Mohammed Alser is a tenure-track Assistant Professor of Bioinformatics and Computer Science in the Department of Computer Science, within the College of Arts and Sciences, at Georgia State University, USA. His primary research incorporates several aspects of bioinformatics, metagenomics, computational genomics, and computer science. His research aims to enable efficient computational genomic analyses by rethinking the complete compute stack, starting from how we handle input data and algorithms to the underlying hardware architecture. Such a multifaceted approach is necessary to overcome bottlenecks throughout different genomic methods and applications. He is particularly interested in building new data structures, algorithms, AI models, software tools, and hardware architectures for enabling and incorporating efficient computational genomic analyses into clinical practice for rapid surveillance of disease outbreaks, diagnosis of genetic disorders, and identification of pathogens and microbiomes on Earth and in challenging environments such as in outer space.

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  1. CMU-SAFARI/Genome-on-Diet CMU-SAFARI/Genome-on-Diet Public

    Genome-on-Diet is a fast and memory-frugal framework for exemplifying sparsified genomics for read mapping, containment search, and metagenomic profiling. It is much faster & more memory-efficient …

    Roff 17 3

  2. CMU-SAFARI/SneakySnake CMU-SAFARI/SneakySnake Public

    SneakySnake:snake: is the first and the only pre-alignment filtering algorithm that works efficiently and fast on modern CPU, FPGA, and GPU architectures. It greatly (by more than two orders of mag…

    VHDL 53 11

  3. BilkentCompGen/GateKeeper BilkentCompGen/GateKeeper Public

    GateKeeper: Fast Alignment Filter for DNA Short Read Mapping

    VHDL 21 9

  4. CMU-SAFARI/Shouji CMU-SAFARI/Shouji Public

    Shouji is fast and accurate pre-alignment filter for banded sequence alignment calculation. Described in the Bioinformatics journal paper (2019) by Alser et al. at https://academic.oup.com/bioinfor…

    VHDL 18 5

  5. BilkentCompGen/MAGNET BilkentCompGen/MAGNET Public

    MAGNET: Understanding and Improving the Accuracy of Genome Pre-Alignment Filtering

    MATLAB 4 1

  6. smangul1/Microbe-scope smangul1/Microbe-scope Public

    Python 2