High Performance Computing
- Beziehungen:
-
- SAUCE: A web application for interactive teaching and learning of parallel programming
- A Tunable Coarse-Grained Parallel Algorithm for Irregular Dynamic Programming Applications.
- Pattern Recognition in Bioinformatics, Second IAPR International Workshop, PRIB 2007, Singapore, October 1-2, 2007, Proceedings
- Protein Sequence Comparison on the Instruction Systolic Array.
- Load Balancing for Hierarchical Grid Computing: A Case Study.
- Parallel Construction of Large Suffix Trees on a PC Cluster.
- Scanning Biosequence Databases on a Hybrid Parallel Architecture.
- $ν$-net: Deep Learning for Generalized Biventricular Cardiac Mass and Function Parameters.
- Morphological Hough Transform on the Instruction Systolic Array.
- Topic Introduction.
- GEM: an elastic and translation-invariant similarity measure with automatic trend adjustment.
- Workshop on Using Emerging Parallel Architectures for Computational Science.
- Parallel Programming Concepts and Practice
- Bioinformatics High Performance Parallel Computer Architectures
- An Area-Efficient Bit-Serial Integer Multiplier.
- Design of a Bit-Serial Floating Point Unit for a Fine Grained Parallel Processor Array.
- Second Workshop on using Emerging Parallel Architectures
- A bit-serial floating-point unit for a massively parallel system on a chip
- Mapping of Hierarchical Parallel Genetic Algorithms for Protein Folding onto Computational Grids
- Fourth Workshop on using Emerging Parallel Architectures
- A survey of desktop grid applications for e-science
- Parallel Programming
- Pairwise Distance Matrix Computation for Multiple Sequence Alignment on the Cell Broadband Engine
- Hybrid CPU/GPU Acceleration of Detection of 2-SNP Epistatic Interactions in GWAS
- Accelerating BLASTP on the Cell Broadband Engine
- Manycore High-Performance Computing in Bioinformatics
- An area-efficient bit-serial integer and GF(2n) multiplier
- A Reconfigurable Bloom Filter Architecture for BLASTN
- Iterative Sparse Matrix-Vector Multiplication for Integer Factorization on GPUs
- Fast dendrogram-based OTU clustering using sequence embedding
- CRiSPy-CUDA: Computing Species Richness in 16S rRNA Pyrosequencing Datasets with CUDA
- Bioinformatics
- Accelerating short read mapping on an FPGA (abstract only)
- C-Based Design Methodology for FPGA Implementation of ClustalW MSA
- Hyper customized processors for bio-sequence database scanning on FPGAs
- GPU-MEME: Using Graphics Hardware to Accelerate Motif Finding in DNA Sequences
- RabbitVar: ultra-fast and accurate somatic small-variant calling on multi-core architectures
- RabbitTClust: enabling fast clustering analysis of millions bacteria genomes with MinHash sketches
- SPECTR
- Parallel mutual information estimation for inferring gene regulatory networks on GPUs
- CUDASW++: optimizing Smith-Waterman sequence database searches for CUDA-enabled graphics processing units
- CUDASW++4.0: Ultra-fast GPU-based Smith-Waterman Protein Sequence Database Search
- Computing large-scale alignments on a multi-cluster
- UPC++ for bioinformatics: A case study using genome-wide association studies
- A reconfigurable architecture for scanning biosequence databases.
- Parallel design pattern for computational biology and scientific computing applications
- Parallel reconstruction of neighbor-joining trees for large multiple sequence alignments using CUDA
- An Ultrafast Scalable Many-Core Motif Discovery Algorithm for Multiple GPUs
- Parallel detection of regulatory elements with gMP
- Massively parallel solutions for molecular sequence analysis
- Accelerating error correction in high-throughput short-read DNA sequencing data with CUDA
- Accelerating bioinformatics applications via emerging parallel computing systems [Guest editorial]
- MSA-CUDA: Multiple Sequence Alignment on Graphics Processing Units with CUDA
- SWAPHI: Smith-waterman protein database search on Xeon Phi coprocessors
- Parallel RNA sequence-structure alignment
- An FPGA aligner for short read mapping
- Performance analysis of computational biology applications on hierarchical grid systems
- Performance Predictions for General-Purpose Computation on GPUs
- Mapping of BLASTP Algorithm onto GPU Clusters
- A Case Study on Pattern-Based Systems for High Performance Computational Biology
- Evaluation of GPU-based Seed Generation for Computational Genomics Using Burrows-Wheeler Transform
- High performance biosequence database scanning on reconfigurable platforms
- High Performance Database Searching with HMMer on FPGAs
- A Hybrid Architecture for Multimedia Processors.
- Tomographic Image Reconstruction on the Instruction Systolic Array.
- Comparative phyloinformatics of virus genes at micro and macro levels in a distributed computing environment
- Fast Schedulability Analysis Using Commodity Graphics Hardware
- The Sliced COO Format for Sparse Matrix-Vector Multiplication on CUDA-enabled GPUs
- High performance protein sequence database scanning on the Cell Broadband Engine.
- Solving the Bottleneck Problem in Bioinformatics Computing: An Architectural Perspective
- Preattentive Colour Features by Steerable Filters.
- Predicting Binding Peptides with Simultaneous Optimization of Entropy and Evolutionary Distance.
- Bit-Parallel Approximate Pattern Matching on the Xeon Phi Coprocessor
- Quality-score guided error correction for short-read sequencing data using CUDA
- SNVSniffer: An integrated caller for germline and somatic SNVs based on Bayesian models
- RabbitMash: accelerating hash-based genome analysis on modern multi-core architectures
- RabbitQCPlus: More Efficient Quality Control for Sequencing Data
- Deep semantic lung segmentation for tracking potential pulmonary perfusion biomarkers in chronic obstructive pulmonary disease (COPD): The multi-ethnic study of atherosclerosis COPD study
- rapidGSEA: Speeding up gene set enrichment analysis on multi-core CPUs and CUDA-enabled GPUs
- SWMapper: Scalable Read Mapper on SunWay TaihuLight
- SAUCE: A Web-Based Automated Assessment Tool for Teaching Parallel Programming
- DeepFilter: A Deep Learning Based Variant Filter for VarDict
- Optimization of Reactive Force Field Simulation: Refactor, Parallelization, and Vectorization for Interactions
- Millimeter-Scale and Billion-Atom Reactive Force Field Simulation on Sunway Taihulight
- Combining GPU and FPGA Technology for Efficient Exhaustive Interaction Analysis in GWAS
- MSAProbs-MPI: parallel multiple sequence aligner for distributed-memory systems
- kmcEx: memory-frugal and retrieval-efficient encoding of counted k-mers
- Massively Parallel ANS Decoding on GPUs
- MyPhi: Efficient Levenshtein Distance Computation on Xeon Phi Based Architectures
- Fast and efficient short read mapping based on a succinct hash index
- mD3DOCKxb: An Ultra-Scalable CPU-MIC Coordinated Virtual Screening Framework
- SWhybrid: A Hybrid-Parallel Framework for Large-Scale Protein Sequence Database Search
- S-Aligner: Ultrascalable read mapping on Sunway Taihu Light
- Mapping of option pricing algorithms onto heterogeneous many-core architectures
- CLOVE: classification of genomic fusions into structural variation events
- Bio-ESMD: A Data Centric Implementation for Large-Scale Biological System Simulation on Sunway TaihuLight Supercomputer
- Redesigning and Optimizing UCSF DOCK3.7 on Sunway TaihuLight
- Accelerating JPEG Decompression on GPUs
- Cell-List based Molecular Dynamics on Many-Core Processors: A Case Study on Sunway TaihuLight Supercomputer
- A generic parallel pattern-based system for bioinformatics
- Parallel algorithms for large-scale biological sequence alignment on Xeon-Phi based clusters
- Parallel and Space-Efficient Construction of Burrows-Wheeler Transform and Suffix Array for Big Genome Data
- Accelerating Large-Scale Biological Database Search on Xeon Phi-based Neo-Heterogeneous Architectures
- SNVSniffer: an integrated caller for germline and somatic single-nucleotide and indel mutations
- Bit-parallel approximate pattern matching: Kepler GPU versus Xeon Phi
- Multiple Protein Sequence Alignment with MSAProbs
- A Parallel Algorithm for Error Correction in High-Throughput Short-Read Data on CUDA-Enabled Graphics Hardware
- Constructing large suffix trees on a computational grid
- Parallel pattern-based systems for computational biology: A case study
- Accelerating the Viterbi algorithm for Profile Hidden Markov Models using reconfigurable hardware
- Multi-objective evolutionary algorithm for discovering peptide binding motifs
- Parallel RNA secondary structure prediction using stochastic context-free grammars
- Reconfigurable architectures for bio-sequence database scanning on FPGAs
- Design of a parallel accelerator for volume rendering
- A parallel accelerator architecture for multimedia video compression
- Long operand arithmetic on instruction systolic computer architectures and its application in RSA cryptography
- Efficient and Accurate OTU Clustering with GPU-Based Sequence Alignment and Dynamic Dendrogram Cutting
- Large-scale genome-wide association studies on a GPU cluster using a CUDA-accelerated PGAS programming model
- Faster GPU-Accelerated Smith-Waterman Algorithm with Alignment Backtracking for Short DNA Sequences
- CUDA-Accelerated Alignment of Subsequences in Streamed Time Series Data
- FPGA-based acceleration of detecting statistical epistasis in GWAS
- CUSHAW2-GPU: Empowering Faster Gapped Short-Read Alignment Using GPU Computing
- Iterative sparse matrix-vector multiplication for accelerating the block Wiedemann algorithm over GF(2) on multi-graphics processing unit systems
- A hybrid short read mapping accelerator
- CUDA-BLASTP: Accelerating BLASTP on CUDA-Enabled Graphics Hardware
- DecGPU: distributed error correction on massively parallel graphics processing units using CUDA and MPI
- CompleteMOTIFs: DNA motif discovery platform for transcription factor binding experiments
- CUDA-MEME: Accelerating motif discovery in biological sequences using CUDA-enabled graphics processing units
- MPI-HMMER-Boost: Distributed FPGA acceleration
- Performance analysis of general-purpose computation on commodity graphics hardware:: A case study using bioinformatics
- Streaming algorithms for biological sequence alignment on GPUs
- Multi-threaded vectorized distance matrix computation on the CELL/BE and x86/SSE2 architectures
- High Speed Biological Sequence Analysis With Hidden Markov Models on Reconfigurable Platforms
- A fast hybrid short read fragment assembly algorithm
- SHREC: a short-read error correction method
- Accelerating molecular dynamics simulations using Graphics Processing Units with CUDA
- Integrating FPGA acceleration into HMMer
- CBESW: Sequence Alignment on the Playstation 3
- A hybrid computational grid architecture for comparative genomics
- Predicting peptides binding to MHC class II molecules using multi-objective evolutionary algorithms
- XLCS: A New Bit-Parallel Longest Common Subsequence Algorithm on Xeon Phi Clusters.
- Redesign and Accelerate the AIREBO Bond-Order Potential on the New Sunway Supercomputer
- RabbitQCPlus 2.0: More efficient and versatile quality control for sequencing data
- RabbitV: fast detection of viruses and microorganisms in sequencing data on multi-core architectures.
- Online Event Selection for Mu3e using GPUs.
- AnySeq/GPU: A Novel Approach for Faster Sequence Alignment on GPUs.
- AnySeq/GPU: a novel approach for faster sequence alignment on GPUs.
- Accelerating JPEG Decompression on GPUs.
- Third Workshop on using Emerging Parallel Architectures
- A 3D Deep Neural Network for Liver Volumetry in 3T Contrast-Enhanced MRI
- Fully automated detection of primary sclerosing cholangitis (PSC)-compatible bile duct changes based on 3D magnetic resonance cholangiopancreatography using machine learning
- cuDTW plus plus : Ultra-Fast Dynamic Time Warping on CUDA-Enabled GPUs
- Reconfigurable Accelerator for the Word-Matching Stage of BLASTN
- High-speed exhaustive 3-locus interaction epistasis analysis on FPGAs
- GPU-accelerated exhaustive search for third-order epistatic interactions in case-control studies
- SparseHC: a memory-efficient online hierarchical clustering algorithm
- Parallelizing Epistasis Detection in GWAS on FPGA and GPU-Accelerated Computing Systems
- CUDA-enabled Sparse Matrix-Vector Multiplication on GPUs using atomic operations
- Using reconfigurable hardware to accelerate multiple sequence alignment with ClustalW
- RabbitFX: Efficient Framework for FASTA/Q File Parsing on Modern Multi-Core Platforms
- MSAProbs: multiple sequence alignment based on pair hidden Markov models and partition function posterior probabilities
- RabbitKSSD: accelerating genome distance estimation on modern multi-core architectures
- Convolutional neural network prediction of molecular properties for aerosol chemistry and health effects
- CUDASW++2.0: enhanced Smith-Waterman protein database search on CUDA-enabled GPUs based on SIMT and virtualized SIMD abstractions
- Faster Segmented Sort on GPUs
- FeatherCNN: Fast Inference Computation with TensorGEMM on ARM Architectures
- Massively Parallel Huffman Decoding on GPUs
- Automatic Generation of High-Performance Convolution Kernels on ARM CPUs for Deep Learning
- Parallel Pairwise Epistasis Detection on Heterogeneous Computing Architectures
- Parallel DNA Sequence Alignment on the Cell Broadband Engine
- A Parallel BSP Algorithm for Irregular Dynamic Programming
- Molecular Dynamics Simulations on Commodity GPUs with CUDA
- Accurate Scanning of Sequence Databases with the Smith-Waterman Algorithm
- Hierarchical Grid Computing for High‐Performance Bioinformatics
- Next-generation sequencing: big data meets high performance computing
- Big Data in metagenomics: Apache Spark vs MPI
- LightSpMV: Faster CSR-based Sparse Matrix-Vector Multiplication on CUDA-enabled GPUs
- GSWABE: faster GPU-accelerated sequence alignment with optimal alignment retrieval for short DNA sequences
- CellMinerHCC: a microarray-based expression database for hepatocellular carcinoma cell lines
- RabbitQC: high-speed scalable quality control for sequencing data
- Musket: a multistage k-mer spectrum-based error corrector for Illumina sequence data
- Musket: a multistage k-mer spectrum-based error corrector for Illumina sequence data.
- Long read alignment based on maximal exact match seeds
- CUSHAW: a CUDA compatible short read aligner to large genomes based on the Burrows-Wheeler transform
- ν-net
- CUSHAW Suite: Parallel and Efficient Algorithms for NGS Read Alignment
- From GPUs to AI and quantum: three waves of acceleration in bioinformatics
- CAREx: context-aware read extension of paired-end sequencing data
- CUDA-enabled hierarchical ward clustering of protein structures based on the nearest neighbour chain algorithm
- A computational method for studying the relation between alternative splicing and DNA methylation
- Parallelized clustering of protein structures on cuda-enabled gpus
- cuBool: bit-parallel Boolean Matrix Factorization on CUDA-enabled accelerators
- SPECTR: Scalable Parallel Short Read Error Correction on Multi-core and Many-core Architectures
- Accelerating metagenomic read classification on CUDA-enabled GPUs
- An adaptive grid implementation of DNA sequence alignment
- ParDRe: faster parallel duplicated reads removal tool for sequencing studies
- A hybrid architecture for bioinformatics
- Parallel Discovery of Transcription Factor Binding Sites.
- KPROC - An Instruction Systolic Architecture for Parallel Prefix Applications.
- SWAPHI: Smith-Waterman Protein Database Search on Xeon Phi Coprocessors
- Pattern Recognition in Bioinformatics
- SWAPHI-LS: Smith-Waterman Algorithm on Xeon Phi Coprocessors for Long DNA Sequences
- parSRA: A framework for the parallel execution of short read aligners on compute clusters
- Development of distributed bioinformatics applications with GMP
- Massively parallel computation of atmospheric neutrino oscillations on CUDA-enabled accelerators
- Morphological hough transform on the instruction systolic array
- High-speed Multiple Sequence Alignment on a reconfigurable platform
- Deriving matrix of peptide-MHC interactions in diabetic mouse by genetic algorithm
- Multiple Sequence Alignment on an FPGA
- Biological Sequence Analysis with Hidden Markov Models on an FPGA.
- PUNAS: A Parallel Ungapped-Alignment-Featured Seed Verification Algorithm for Next-Generation Sequencing Read Alignment
- BGSA: a bit-parallel global sequence alignment toolkit for multi-core and many-core architectures
- Contemporary Computing - 4th International Conference, IC3 2011, Noida, India, August 8-10, 2011. Proceedings
- MetaCache: context-aware classification of metagenomic reads using minhashing
- Efficient Parallel Sort on AVX-512-Based Multi-Core and Many-Core Architectures
- AnyDSL: A Partial Evaluation Framework for Programming High-Performance Libraries
- Packing a multidisperse system of hard disks in a circular environment
- CARE: Context-Aware Sequencing Read Error Correction
- DySC : software for greedy clustering of 16S rRNA reads
- CARE 2.0: reducing false-positive sequencing error corrections using machine learning
- Scalable clustering by iterative partitioning and point attractor representation
- CUDASW++ 3.0 : accelerating Smith-Waterman protein database search by coupling CPU and GPU SIMD instructions
- AnySeq: A High Performance Sequence Alignment Library based on Partial Evaluation
- A big data approach to metagenomics for all-food-sequencing
- LightSpMV: Faster CUDA-Compatible Sparse Matrix-Vector Multiplication Using Compressed Sparse Rows
- Bio-sequence database scanning on a GPU
- GPU-ClustalW: Using Graphics Hardware to Accelerate Multiple Sequence Alignment
- Prediction of low coverage prone regions for Illumina sequencing projects using a support vector machine
- Neighbor-list-free Molecular Dynamics on Sunway TaihuLight Supercomputer
- RainDrop: Rapid activation matrix computation for droplet-based single-cell RNA-seq reads
- Parallel and scalable short-read alignment on multi-core clusters using UPC++
- AnySeq: A High Performance Sequence Alignment Library based on Partial Evaluation.
- HECTOR : a parallel multistage homopolymer spectrum based error corrector for 454 sequencing data
- Parallelized short read assembly of large genomes using de Bruijn graphs
- All-Food-Seq (AFS) : a quantifiable screen for species in biological samples by deep DNA sequencing
- CUSHAW3 : sensitive and accurate base-space and color-space short-read alignment with hybrid seeding
- AFS: identification and quantification of species composition by metagenomic sequencing
- Ultrametricity property of energy landscapes of multidisperse packing problems
- AnyDSL: a partial evaluation framework for programming high-performance libraries
- Suffix Array Construction on Multi-GPU Systems
- Gossip: Efficient Communication Primitives for Multi-GPU Systems
- Graphical workflow system for modification calling by machine learning of reverse transcription signatures
- Identification and quantification of meat product ingredients by whole-genome metagenomics (All-Food-Seq)
- WarpCore: A Library for fast Hash Tables on GPUs.
- MetaCache-GPU: Ultra-Fast Metagenomic Classification
- Projection-based improvement of 3D reconstructions from motion-impaired dental cone beam CT data
- WarpCore: A Library for fast Hash Tables on GPUs
- RNACache: Fast Mapping of RNA-Seq Reads to Transcriptomes Using MinHashing
- MetaCache-GPU: Ultra-Fast Metagenomic Classification.
- FMapper: Scalable read mapper based on succinct hash index on SunWay TaihuLight
- Automated Identification and Location of Three Dimensional Atmospheric Frontal Systems
- General-purpose GPU hashing data structures and their application in accelerated genomics
- MetaTransformer: deep metagenomic sequencing read classification using self-attention models
- RNACache: A scalable approach to rapid transcriptomic read mapping using locality sensitive hashing
- WarpDrive: Massively Parallel Hashing on Multi-GPU Nodes
- Speed and accuracy improvement of higher-order epistasis detection on CUDA-enabled GPUs
- Ultra-Fast Detection of Higher-Order Epistatic Interactions on GPUs
- Reconstruction of Low Energy Neutrino Events with GPUs at IceCube
- Automated detection and classification of synoptic-scale fronts from atmospheric data grids
Has propertyThe following list shows all publications with a direct relation to the organisational unit. To retrieve a list which includes publications of subordinate organisational units, use the search facet "Organizational structure".
Child of