BilkentCompGen / GateKeeperLinks
GateKeeper: Fast Alignment Filter for DNA Short Read Mapping
☆21Updated 6 years ago
Alternatives and similar repositories for GateKeeper
Users that are interested in GateKeeper are comparing it to the libraries listed below
Sorting:
- Source code of the processing-in-memory simulator used in the GRIM-Filter paper published at BMC Genomics in 2018: "GRIM-Filter: Fast See…☆11Updated 8 years ago
- A benchmark suite to study the performance characteristics of genomics applications☆32Updated last year
- Source code for the software implementations of the GenASM algorithms proposed in our MICRO 2020 paper: Senol Cali et. al., "GenASM: A Hi…☆32Updated 3 years ago
- Co-processor for whole genome alignment☆13Updated 5 years ago
- SneakySnake is the first and the only pre-alignment filtering algorithm that works efficiently and fast on modern CPU, FPGA, and GPU arch…☆54Updated 2 years ago
- Falcon Accelerated Genomics Pipelines☆15Updated 6 years ago
- ☆15Updated 5 months ago
- Shouji is fast and accurate pre-alignment filter for banded sequence alignment calculation. Described in the Bioinformatics journal paper…☆18Updated 6 years ago
- Hardware Acceleration of Long Read Pairwise Overlapping in Genome Sequencing: Open Source Repository☆34Updated last year
- GenStore is the first in-storage processing system designed for genome sequence analysis that greatly reduces both data movement and comp…☆14Updated 3 years ago
- Smith-Waterman Acceleration on Intel’s FPGA with OpenCL for Long DNA Sequences☆18Updated 7 years ago
- Darwin: A co-processor for long read alignment☆16Updated 6 years ago
- Source code for the Shifted Hamming Distance (SHD) filtering mechanism for sequence alignment. Described in the Bioinformatics journal pa…☆36Updated 5 years ago
- LOGAN: High-Performance Multi-GPU X-Drop Long-Read Alignment.☆30Updated 3 years ago
- generating hardware accelerators for pangenomic graph queries☆39Updated this week
- Optimization of a Haplotype PairHMM class for GPU processing☆24Updated 9 years ago
- NOCulator is a network-on-chip simulator providing cycle-accurate performance models for a wide variety of networks (mesh, torus, ring, h…☆29Updated 3 years ago
- Falcon Merlin Compiler☆41Updated 5 years ago
- ☆10Updated 4 years ago
- Parallel String Graph Construction, Transitive Reduction, and Contig Generation for De Novo Genome Assembly☆16Updated last year
- Exploring Shared Virtual Memory Abstractions in OpenCL Tools for FPGAs☆18Updated 8 years ago
- PAAS: A System Level Simulator for Heterogeneous (CPU-FPGA) Computing Systems☆43Updated 4 years ago
- ☆22Updated 4 years ago
- ☆30Updated 6 years ago
- VASim is a virtual homogeneous non-deterministic finite automata automata simulator and transformation tool. VASim can parse, transform, …☆36Updated last year
- Hands-on experience using the Vitis unified software platform with Xilinx FPGA hardware☆48Updated last year
- SMASH is a hardware-software cooperative mechanism that enables highly-efficient indexing and storage of sparse matrices. The key idea of…☆18Updated 5 years ago
- The 3rd Iteration of the Berkeley RISC-V DMA Accelerator☆28Updated 6 years ago
- micro-read Fast Alignment Search Tool☆19Updated 6 years ago
- Linear model training using stochastic gradient descent (SGD) on PYNQ with full to low precision.☆55Updated 8 years ago