Arun Subramaniyan
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View article: Modeling Intersection-Level Fuel Consumption for Adaptive Traffic Signals Using a Hybrid Neural Network with a Pdf-Shaped Loss Function: Validation and Deployment
Modeling Intersection-Level Fuel Consumption for Adaptive Traffic Signals Using a Hybrid Neural Network with a Pdf-Shaped Loss Function: Validation and Deployment Open
View article: GenDP: A Framework of Dynamic Programming Acceleration for Genome Sequencing Analysis
GenDP: A Framework of Dynamic Programming Acceleration for Genome Sequencing Analysis Open
This artifact contains the code and instructions for paper: "GenDP: A Framework of Dynamic Programming Acceleration for Genome Sequencing Analysis" in International Symposium on Computer Architecture (ISCA), 2023.
View article: GenDP: A Framework of Dynamic Programming Acceleration for Genome Sequencing Analysis
GenDP: A Framework of Dynamic Programming Acceleration for Genome Sequencing Analysis Open
This artifact contains the code and instructions for paper: "GenDP: A Framework of Dynamic Programming Acceleration for Genome Sequencing Analysis" in International Symposium on Computer Architecture (ISCA), 2023.
View article: GenDP: A Framework of Dynamic Programming Acceleration for Genome Sequencing Analysis
GenDP: A Framework of Dynamic Programming Acceleration for Genome Sequencing Analysis Open
This artifact contains the code and instructions for paper: "GenDP: A Framework of Dynamic Programming Acceleration for Genome Sequencing Analysis" in International Symposium on Computer Architecture (ISCA), 2023.
View article: Fuzzy set intersection based paired-end short-read alignment
Fuzzy set intersection based paired-end short-read alignment Open
Much genomic data comes in the form of paired-end reads: two reads that represent genetic material with a small gap between. We present a new algorithm for aligning both reads in a pair simultaneously by fuzzily intersecting the sets of ca…
View article: Fuzzy set intersection based paired-end short-read alignment
Fuzzy set intersection based paired-end short-read alignment Open
Much genomic data comes in the form of paired-end reads: two reads that represent genetic material with a small gap between. We present a new algorithm for aligning both reads in a pair simultaneously by fuzzily intersecting the sets of ca…
View article: An international virtual hackathon to build tools for the analysis of structural variants within species ranging from coronaviruses to vertebrates
An international virtual hackathon to build tools for the analysis of structural variants within species ranging from coronaviruses to vertebrates Open
In October 2020, 62 scientists from nine nations worked together remotely in the Second Baylor College of Medicine & DNAnexus hackathon, focusing on different related topics on Structural Variation, Pan-genomes, and SARS-CoV-2 related rese…
View article: An international virtual hackathon to build tools for the analysis of structural variants within species ranging from coronaviruses to vertebrates
An international virtual hackathon to build tools for the analysis of structural variants within species ranging from coronaviruses to vertebrates Open
In October 2020, 62 scientists from nine nations worked together remotely in the Second Baylor College of Medicine & DNAnexus hackathon, focusing on different related topics on Structural Variation, Pan-genomes, and SARS-CoV-2 related rese…
View article: Accelerated Systems for Pattern Matching
Accelerated Systems for Pattern Matching Open
Pattern matching forms the core of many applications and contributes to a significant fraction of their execution time. For instance, scanning the human reference genome for motifs and identifying variations between individuals requires pr…
View article: A Methodology for Updating Prognostic Models via Kalman Filters
A Methodology for Updating Prognostic Models via Kalman Filters Open
Prognostic models are built to predict the future evolution of the state or health of a system. Typical applications of these models include predictions of damage (like crack, wear) andestimation of remaining useful life of a component. Pr…
View article: Accelerating Maximal-Exact-Match Seeding with Enumerated Radix Trees
Accelerating Maximal-Exact-Match Seeding with Enumerated Radix Trees Open
Motivation Read alignment is a time-consuming step in genome sequence analysis. In the read alignment software BWA-MEM and the recently published faster version BWA-MEM2, the seeding step is a major bottleneck, for instance, contributing 3…
View article: Neural Cache: Bit-Serial In-Cache Acceleration of Deep Neural Networks
Neural Cache: Bit-Serial In-Cache Acceleration of Deep Neural Networks Open
This paper presents the Neural Cache architecture, which re-purposes cache structures to transform them into massively parallel compute units capable of running inferences for Deep Neural Networks. Techniques to do in-situ arithmetic in SR…
View article: Uncertainty Quantification Analysis of Both Experimental and CFD Simulation Data of a Bench-scale Fluidized Bed Gasifier
Uncertainty Quantification Analysis of Both Experimental and CFD Simulation Data of a Bench-scale Fluidized Bed Gasifier Open
Adequate assessment of the uncertainties in modeling and simulation is becoming an integral part of the simulation based engineering design. The goal of this study is to demonstrate the application of non-intrusive Bayesian uncertainty qua…
View article: Parallel Automata Processor
Parallel Automata Processor Open
Finite State Machines (FSM) are widely used computation models for many application domains. These embarrassingly sequential applications with irregular memory access patterns perform poorly on conventional von-Neumann architectures. The M…
View article: Parallel Automata Processor
Parallel Automata Processor Open
Finite State Machines (FSM) are widely used computation models for many application domains. These embarrassingly sequential applications with irregular memory access patterns perform poorly on conventional von-Neumann architectures. The M…
View article: Quantifying uncertainty of a reacting multiphase flow in a bench-scale fluidized bed gasifier: A Bayesian approach
Quantifying uncertainty of a reacting multiphase flow in a bench-scale fluidized bed gasifier: A Bayesian approach Open
View article: Nonintrusive Uncertainty Quantification of Computational Fluid Dynamics Simulations of a Bench-Scale Fluidized-Bed Gasifier
Nonintrusive Uncertainty Quantification of Computational Fluid Dynamics Simulations of a Bench-Scale Fluidized-Bed Gasifier Open
Uncertainty quantification (UQ) analysis is increasingly becoming one of the major requirements of simulation-based engineering to assess the confidence in the results and make better-informed decisions based on the insight derived from th…
View article: Fatigue Crack Growth Life Assessment for Industrial Applications using Re-meshing and Bayesian Hybrid Techniques
Fatigue Crack Growth Life Assessment for Industrial Applications using Re-meshing and Bayesian Hybrid Techniques Open
In this study, two different techniques are outlined for assessment of fatigue crack growth life of industrial components: i) a finite element based approach (3DFAS, GE proprietary) using re-meshing techniques that allows automatic propaga…
View article: Selective Cache Line Replication Scheme in Shared Last Level Cache
Selective Cache Line Replication Scheme in Shared Last Level Cache Open
In current multi-core systems with the shared last level cache (LLC) physically distributed across all the cores, both initial data placement and subsequent placement of data close to the requesting core can contribute to reducing memory a…