minimizers
There are 0 repository under minimizers topic.
pirovc / ganon
ganon2 classifies genomic sequences against large sets of references efficiently, with integrated download and update of databases (refseq/genbank), taxonomic profiling (ncbi/gtdb), binning and hierarchical classification, customized reporting and more
Language:Python 84CMU-SAFARI / BLEND
BLEND is a mechanism that can efficiently find fuzzy seed matches between sequences to significantly improve the performance and accuracy while reducing the memory space usage of two important applications: 1) finding overlapping reads and 2) read mapping. Described by Firtina et al. (published in NARGAB https://doi.org/10.1093/nargab/lqad004)
Language:C 36- Language:Python 28
- Language:C++ 10
GateSeeder is the first near-memory CPU-FPGA co-design for alleviating both the compute-bound and memory-bound bottlenecks in short and long-read mapping. GateSeeder outperforms Minimap2 by up to 40.3×, 4.8×, and 2.3× when mapping real ONT, HiFi, and Illumina reads, respectively.
Language:C 7ITBE-Lab / seed-evaluation
Evaluation tools for "A performant bridge between fixed-size and variable-size seeding"
Language:Python 6Kingsford-Group / polarset
Code to create polar sets for genome sketching.
Language:Python 6- Language:C++ 2
- Language:C++ 1
- Language:C++ 0
joao-conde / fer-bio
Repository to host the project for "Bioinformatics", a course @ FER
Language:C++
