Pinned Repositories
1brc
alg-viz
String algorithm visualizations
astar-pairwise-aligner
A pairwise sequence aligner written in Rust
BAPCtools
Tools for developing ICPC-style programming contest problems.
minimizers
Reference implementations of minimizer schemes to go with the mod-minimizers paper.
PtrHash
PtrHash minimal perfect hash function, based of PTHash
research
Blog on PhD @ BMI ETH Zurich
rust-phylogeny
Rust package for constructing and analyzing phylogenies.
simd-sketch
Compute bottom-s sketches and s-buckets sketches, using simd-minimizers crate.
suffix-array-searching
High throughput suffix array searching
RagnarGrootKoerkamp's Repositories
RagnarGrootKoerkamp/suffix-array-searching
High throughput suffix array searching
RagnarGrootKoerkamp/astar-pairwise-aligner
A pairwise sequence aligner written in Rust
RagnarGrootKoerkamp/BAPCtools
Tools for developing ICPC-style programming contest problems.
RagnarGrootKoerkamp/PtrHash
PtrHash minimal perfect hash function, based of PTHash
RagnarGrootKoerkamp/1brc
RagnarGrootKoerkamp/research
Blog on PhD @ BMI ETH Zurich
RagnarGrootKoerkamp/minimizers
Reference implementations of minimizer schemes to go with the mod-minimizers paper.
RagnarGrootKoerkamp/simd-sketch
Compute bottom-s sketches and s-buckets sketches, using simd-minimizers crate.
RagnarGrootKoerkamp/oxford-bioinformatics-template
Improved version of the Oxford Bioinformatics paper template
RagnarGrootKoerkamp/sshash-rs
Rust rewrite of SSHash
RagnarGrootKoerkamp/author-plot
Plot correlation between authors of papers
RagnarGrootKoerkamp/cpu-benchmarks
Experiments to benchmark CPU characteristics
RagnarGrootKoerkamp/just-shell
Tiny shell for invoking `just` rules.
RagnarGrootKoerkamp/edlib
Lightweight, super fast C/C++ (& Python) library for sequence alignment using edit (Levenshtein) distance.
RagnarGrootKoerkamp/mphf-experiments
Fork of MPHF-experiments for PtrHash
RagnarGrootKoerkamp/sway
Fork of sway 1.8 that adds `inhibit_fullscreen` command in `fakefullscreen` branch
RagnarGrootKoerkamp/1brc-1
1️⃣🐝🏎️ The One Billion Row Challenge -- A fun exploration of how quickly 1B rows from a text file can be aggregated with Java
RagnarGrootKoerkamp/block-aligner
SIMD-accelerated library for computing global and X-drop affine gap penalty sequence-to-sequence or sequence-to-profile alignments using an adaptive block-based algorithm.
RagnarGrootKoerkamp/cacheline-ef
Elias-Fano encoding per cache line
RagnarGrootKoerkamp/cargo-depgraph
Creates dependency graphs for cargo projects using `cargo metadata` and graphviz.
RagnarGrootKoerkamp/hugo-coder
A minimalist blog theme for hugo.
RagnarGrootKoerkamp/libdivsufsort-rs
A rust wrapper for libdivsufsort
RagnarGrootKoerkamp/libsais-rs
Rust bindings to libsais
RagnarGrootKoerkamp/longest-common-repeat
RagnarGrootKoerkamp/mem_dbg-rs
A trait + derive to recursively compute / print the memory usage of a data structure.
RagnarGrootKoerkamp/problem-package-format
Kattis problem package format specification
RagnarGrootKoerkamp/rust-bio
This library provides implementations of many algorithms and data structures that are useful for bioinformatics. All provided implementations are rigorously tested via continuous integration.
RagnarGrootKoerkamp/rust-bio-tools
A set of command line utilities based on Rust-Bio.
RagnarGrootKoerkamp/smhasher
smhasher fork to test NtHash
RagnarGrootKoerkamp/sux-rs
Rust implementations of succinct data structures