45 citations · 66 across the 10 of their papers we have counts for
9 papers · 1 filter
cuSBF: A Minimizer-Aware Bloom Filter for Genomic Sequence Data on Modern GPUs
Tim Dortmann, Markus Vieth, Bertil Schmidt
Efficient genomic k-mer indexing depends on approximate membership query (AMQ) structures that must deliver high throughput, low false-positive rates (FPR), and modest memory footp…
Cuckoo-GPU: Accelerating Cuckoo Filters on Modern GPUs
Tim Dortmann, Markus Vieth, Bertil Schmidt
Approximate Membership Query (AMQ) structures are essential for high-throughput systems in databases, networking, and bioinformatics. While Bloom filters offer speed, they lack sup…
Optimizing Bloom Filters on Modern GPUs
Daniel Jünger, Kevin Kristensen, Yunsong Wang +2
Bloom filters are a fundamental data structure for approximate membership queries in applications ranging from analytics and databases to genomics. Deployed as prefilters, they eli…
Online Event Selection for Mu3e using GPUs
Valentin Henkys, Bertil Schmidt, Niklaus Berger
In the search for physics beyond the Standard Model the Mu3e experiment tries to observe the lepton flavor violating decay . By observing the decay pro…
AnySeq/GPU: A Novel Approach for Faster Sequence Alignment on GPUs
André Müller, Bertil Schmidt, Richard Membarth +2
In recent years, the rapidly increasing number of reads produced by next-generation sequencing (NGS) technologies has driven the demand for efficient implementations of sequence al…
Accelerating JPEG Decompression on GPUs
André Weißenberger, Bertil Schmidt
The JPEG compression format has been the standard for lossy image compression for over multiple decades, offering high compression rates at minor perceptual loss in image quality.…
WarpCore: A Library for fast Hash Tables on GPUs
Daniel Jünger, Robin Kobus, André Müller +4
Hash tables are ubiquitous. Properties such as an amortized constant time complexity for insertion and querying as well as a compact memory layout make them versatile associative d…
AnySeq: A High Performance Sequence Alignment Library based on Partial Evaluation
André Müller, Bertil Schmidt, Andreas Hildebrandt +4
Sequence alignments are fundamental to bioinformatics which has resulted in a variety of optimized implementations. Unfortunately, the vast majority of them are hand-tuned and spec…
SWAPHI: Smith-Waterman Protein Database Search on Xeon Phi Coprocessors
Yongchao Liu, Bertil Schmidt
The maximal sensitivity of the Smith-Waterman (SW) algorithm has enabled its wide use in biological sequence database search. Unfortunately, the high sensitivity comes at the expen…