RagnarGrootKoerkamp/sassy

Fast approximate string searching

Language: Rust - Size: 285 KB - Last synced at: 3 days ago - Pushed at: 3 days ago - Stars: 29 - Forks: 1

RagnarGrootKoerkamp/research

Blog on PhD @ BMI ETH Zurich

Language: TeX - Size: 138 MB - Last synced at: 11 days ago - Pushed at: 11 days ago - Stars: 33 - Forks: 3

RagnarGrootKoerkamp/PtrHash

PtrHash minimal perfect hash function, based of PTHash

Language: Rust - Size: 733 KB - Last synced at: 11 days ago - Pushed at: 11 days ago - Stars: 56 - Forks: 9

RagnarGrootKoerkamp/astar-pairwise-aligner

A pairwise sequence aligner written in Rust

Language: Rust - Size: 6.57 MB - Last synced at: 10 days ago - Pushed at: about 1 month ago - Stars: 134 - Forks: 11

RagnarGrootKoerkamp/libdivsufsort Fork of y-256/libdivsufsort

A fork to update the cmake minimum required version

Language: C - Size: 65.4 KB - Last synced at: 24 days ago - Pushed at: 24 days ago - Stars: 0 - Forks: 0

RagnarGrootKoerkamp/libsais-rs

Rust bindings to libsais

Language: Rust - Size: 5.86 KB - Last synced at: 24 days ago - Pushed at: 24 days ago - Stars: 0 - Forks: 1

RagnarGrootKoerkamp/BAPCtools

Tools for developing ICPC-style programming contest problems.

Language: Python - Size: 13.6 MB - Last synced at: 24 days ago - Pushed at: 24 days ago - Stars: 55 - Forks: 24

RagnarGrootKoerkamp/simd-sketch

Compute bottom-s sketches and s-buckets sketches, using simd-minimizers crate.

Language: Rust - Size: 130 KB - Last synced at: about 1 month ago - Pushed at: about 1 month ago - Stars: 16 - Forks: 1

RagnarGrootKoerkamp/edlib Fork of Martinsos/edlib

Edlib fork for use in github.com/pairwise-alignment/edlib-rs

Language: C++ - Size: 4.65 MB - Last synced at: about 1 month ago - Pushed at: about 1 month ago - Stars: 1 - Forks: 0

RagnarGrootKoerkamp/rust-phylogeny

Rust package for constructing and analyzing phylogenies.

Language: Rust - Size: 15.6 KB - Last synced at: 6 days ago - Pushed at: about 1 month ago - Stars: 15 - Forks: 1

RagnarGrootKoerkamp/minimizers

Reference implementations of minimizer schemes to go with the mod-minimizers paper.

Language: Rust - Size: 5.52 MB - Last synced at: about 1 month ago - Pushed at: about 1 month ago - Stars: 24 - Forks: 6

RagnarGrootKoerkamp/suffix-array-searching

High throughput suffix array searching

Language: Jupyter Notebook - Size: 7.28 MB - Last synced at: about 2 months ago - Pushed at: about 2 months ago - Stars: 135 - Forks: 9

RagnarGrootKoerkamp/cacheline-ef

Elias-Fano encoding per cache line

Language: Rust - Size: 28.3 KB - Last synced at: 9 days ago - Pushed at: 24 days ago - Stars: 0 - Forks: 1

RagnarGrootKoerkamp/mphf-experiments

Fork of MPHF-experiments for PtrHash

Language: C++ - Size: 2.74 MB - Last synced at: 4 months ago - Pushed at: 4 months ago - Stars: 1 - Forks: 0

RagnarGrootKoerkamp/block-aligner Fork of Daniel-Liu-c0deb0t/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.

Language: Jupyter Notebook - Size: 1.75 MB - Last synced at: 4 months ago - Pushed at: 4 months ago - Stars: 0 - Forks: 0

RagnarGrootKoerkamp/1brc

Language: Rust - Size: 128 KB - Last synced at: 4 months ago - Pushed at: 4 months ago - Stars: 37 - Forks: 3

RagnarGrootKoerkamp/cargo-depgraph Fork of jplatte/cargo-depgraph

Creates dependency graphs for cargo projects using `cargo metadata` and graphviz.

Language: Rust - Size: 1.68 MB - Last synced at: 4 months ago - Pushed at: 4 months ago - Stars: 0 - Forks: 0

RagnarGrootKoerkamp/cpu-benchmarks

Experiments to benchmark CPU characteristics

Language: Rust - Size: 21.5 KB - Last synced at: 6 months ago - Pushed at: 6 months ago - Stars: 0 - Forks: 2

RagnarGrootKoerkamp/author-plot

Plot correlation between authors of papers

Language: TeX - Size: 28.3 KB - Last synced at: 7 months ago - Pushed at: 7 months ago - Stars: 3 - Forks: 0

RagnarGrootKoerkamp/oxford-bioinformatics-template

Improved version of the Oxford Bioinformatics paper template

Language: TeX - Size: 1.03 MB - Last synced at: 9 months ago - Pushed at: 9 months ago - Stars: 11 - Forks: 2

RagnarGrootKoerkamp/sshash-rs

Rust rewrite of SSHash

Language: Rust - Size: 45.9 KB - Last synced at: 10 months ago - Pushed at: 10 months ago - Stars: 7 - Forks: 1

RagnarGrootKoerkamp/rust-bio-tools Fork of rust-bio/rust-bio-tools

A set of command line utilities based on Rust-Bio.

Size: 4.45 MB - Last synced at: about 1 year ago - Pushed at: about 1 year ago - Stars: 0 - Forks: 0

RagnarGrootKoerkamp/just-shell

Tiny shell for invoking `just` rules.

Language: Rust - Size: 17.6 KB - Last synced at: about 17 hours ago - Pushed at: over 1 year ago - Stars: 2 - Forks: 1

RagnarGrootKoerkamp/1brc-1 Fork of gunnarmorling/1brc

1️⃣🐝🏎️ The One Billion Row Challenge -- A fun exploration of how quickly 1B rows from a text file can be aggregated with Java

Size: 1.4 MB - Last synced at: over 1 year ago - Pushed at: over 1 year ago - Stars: 0 - Forks: 0

RagnarGrootKoerkamp/smhasher Fork of tgross35/smhasher

smhasher fork to test NtHash

Size: 14 MB - Last synced at: over 1 year ago - Pushed at: over 1 year ago - Stars: 0 - Forks: 0

RagnarGrootKoerkamp/simple-saca Fork of Daniel-Liu-c0deb0t/simple-saca

Fork to make some PRs

Size: 41 KB - Last synced at: over 1 year ago - Pushed at: over 1 year ago - Stars: 0 - Forks: 0

RagnarGrootKoerkamp/feh Fork of ulteq/feh

fast and light Imlib2-based image viewer

Language: C - Size: 7.17 MB - Last synced at: almost 2 years ago - Pushed at: almost 2 years ago - Stars: 0 - Forks: 0

RagnarGrootKoerkamp/sway Fork of swaywm/sway

Fork of sway 1.8 that adds `inhibit_fullscreen` command in `fakefullscreen` branch

Language: C - Size: 28.3 MB - Last synced at: over 1 year ago - Pushed at: over 1 year ago - Stars: 0 - Forks: 0

RagnarGrootKoerkamp/sway-contrib Fork of OctopusET/sway-contrib

A collection of user-contributed scripts for sway

Size: 16.6 KB - Last synced at: almost 2 years ago - Pushed at: almost 2 years ago - Stars: 0 - Forks: 0

RagnarGrootKoerkamp/alg-viz

String algorithm visualizations

Language: Rust - Size: 1.98 MB - Last synced at: over 2 years ago - Pushed at: over 2 years ago - Stars: 7 - Forks: 0

RagnarGrootKoerkamp/scoreboard Fork of hex539/scoreboard

Online judge scoreboard parser

Size: 20.9 MB - Last synced at: over 2 years ago - Pushed at: over 4 years ago - Stars: 1 - Forks: 0

RagnarGrootKoerkamp/jekyll-photo-gallery Fork of aerobless/jekyll-photo-gallery

Jekyll plugin to generate nice photo galleries easily.

Language: CSS - Size: 24.1 MB - Last synced at: over 2 years ago - Pushed at: over 4 years ago - Stars: 1 - Forks: 0

RagnarGrootKoerkamp/bfs-aligner

A quick demo of extension-aligning Fasta reads to GFA files for unit-costs using BFS and greedy matching

Language: Rust - Size: 70.3 KB - Last synced at: over 2 years ago - Pushed at: almost 3 years ago - Stars: 4 - Forks: 0

RagnarGrootKoerkamp/rna-fold

RNA folding exploration for A*

Language: Rust - Size: 30.3 KB - Last synced at: over 2 years ago - Pushed at: over 2 years ago - Stars: 0 - Forks: 0

RagnarGrootKoerkamp/bapctools-git

AUR package for BAPCtools

Language: Shell - Size: 4.88 KB - Last synced at: over 2 years ago - Pushed at: over 2 years ago - Stars: 0 - Forks: 1

RagnarGrootKoerkamp/triple_accel Fork of Daniel-Liu-c0deb0t/triple_accel

Rust edit distance routines accelerated using SIMD. Supports fast Hamming, Levenshtein, restricted Damerau-Levenshtein, etc. distance calculations and string search.

Language: Rust - Size: 182 KB - Last synced at: over 2 years ago - Pushed at: over 2 years ago - Stars: 0 - Forks: 0

RagnarGrootKoerkamp/cargo Fork of rust-lang/cargo

The Rust package manager

Language: Rust - Size: 35.8 MB - Last synced at: over 2 years ago - Pushed at: over 2 years ago - Stars: 0 - Forks: 0

RagnarGrootKoerkamp/hanabi

Language: Rust - Size: 130 KB - Last synced at: over 2 years ago - Pushed at: over 2 years ago - Stars: 2 - Forks: 0

RagnarGrootKoerkamp/rust-analyzer Fork of rust-lang/rust-analyzer

A Rust compiler front-end for IDEs

Size: 57.2 MB - Last synced at: over 2 years ago - Pushed at: over 2 years ago - Stars: 0 - Forks: 0

RagnarGrootKoerkamp/flamegraph Fork of flamegraph-rs/flamegraph

Easy flamegraphs for Rust projects and everything else, without Perl or pipes <3

Size: 862 KB - Last synced at: over 2 years ago - Pushed at: over 2 years ago - Stars: 0 - Forks: 0

RagnarGrootKoerkamp/WFA2-lib Fork of smarco/WFA2-lib

WFA2-lib: Wavefront alignment algorithm library v2

Size: 11.6 MB - Last synced at: over 2 years ago - Pushed at: almost 3 years ago - Stars: 0 - Forks: 0

RagnarGrootKoerkamp/BiWFA-paper Fork of smarco/BiWFA-paper

Bidirectional WFA (WFA2-lib development branch)

Size: 19.4 MB - Last synced at: over 2 years ago - Pushed at: almost 3 years ago - Stars: 0 - Forks: 0

RagnarGrootKoerkamp/automata

Code accompanying https://arxiv.org/abs/2008.04971

Language: C++ - Size: 1.43 MB - Last synced at: over 2 years ago - Pushed at: almost 5 years ago - Stars: 0 - Forks: 0

RagnarGrootKoerkamp/doomemacs Fork of doomemacs/doomemacs

An Emacs framework for the stubborn martian hacker

Size: 26 MB - Last synced at: over 2 years ago - Pushed at: almost 3 years ago - Stars: 0 - Forks: 0

RagnarGrootKoerkamp/code-review Fork of wandersoncferreira/code-review

Code Reviews in Emacs

Size: 2.2 MB - Last synced at: over 2 years ago - Pushed at: almost 3 years ago - Stars: 0 - Forks: 0

RagnarGrootKoerkamp/nwerc-2022 Fork of WISVCH/nwerc-2022

NWERC Website

Language: Dockerfile - Size: 5.61 MB - Last synced at: over 2 years ago - Pushed at: almost 3 years ago - Stars: 0 - Forks: 0

RagnarGrootKoerkamp/problem-package-format Fork of Kattis/problem-package-format

Kattis problem package format specification

Language: Liquid - Size: 2.37 MB - Last synced at: over 2 years ago - Pushed at: about 3 years ago - Stars: 0 - Forks: 0

RagnarGrootKoerkamp/WFA Fork of smarco/WFA-paper

Wavefront alignment algorithm (WFA): Fast and exact gap-affine pairwise alignment

Language: C - Size: 97.2 MB - Last synced at: over 2 years ago - Pushed at: over 3 years ago - Stars: 0 - Forks: 0

RagnarGrootKoerkamp/rust-bio Fork of rust-bio/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.

Language: Rust - Size: 2.67 MB - Last synced at: 3 months ago - Pushed at: 3 months ago - Stars: 0 - Forks: 0

RagnarGrootKoerkamp/rust-bio-types Fork of rust-bio/rust-bio-types

A library of common biomedical types.

Language: Rust - Size: 130 KB - Last synced at: over 2 years ago - Pushed at: over 2 years ago - Stars: 0 - Forks: 0

RagnarGrootKoerkamp/BAPC21-site Fork of StudieverenigingSTORM/BAPC21-site

Language: HTML - Size: 17.7 MB - Last synced at: over 2 years ago - Pushed at: over 3 years ago - Stars: 0 - Forks: 0

RagnarGrootKoerkamp/hugo-coder Fork of luizdepra/hugo-coder

A minimalist blog theme for hugo.

Size: 6.18 MB - Last synced at: 2 months ago - Pushed at: 2 months ago - Stars: 0 - Forks: 0

RagnarGrootKoerkamp/jumboDB Fork of AntonBankevich/jumboDB

De Bruijn graph construction for large k.

Size: 85 KB - Last synced at: over 2 years ago - Pushed at: almost 4 years ago - Stars: 0 - Forks: 0

RagnarGrootKoerkamp/gurk-rs Fork of boxdot/gurk-rs

Signal Messenger client for terminal

Size: 774 KB - Last synced at: over 2 years ago - Pushed at: almost 4 years ago - Stars: 0 - Forks: 0

RagnarGrootKoerkamp/vimium Fork of philc/vimium

The hacker's browser.

Size: 5.39 MB - Last synced at: over 2 years ago - Pushed at: over 2 years ago - Stars: 0 - Forks: 0

RagnarGrootKoerkamp/slurp Fork of emersion/slurp

Select a region in a Wayland compositor

Language: C - Size: 185 KB - Last synced at: over 2 years ago - Pushed at: about 4 years ago - Stars: 0 - Forks: 0

RagnarGrootKoerkamp/mako Fork of emersion/mako

A lightweight Wayland notification daemon

Language: C - Size: 646 KB - Last synced at: over 2 years ago - Pushed at: about 4 years ago - Stars: 0 - Forks: 0

RagnarGrootKoerkamp/rofi-pass Fork of carnager/rofi-pass

rofi frontend for pass

Size: 1.12 MB - Last synced at: over 2 years ago - Pushed at: about 4 years ago - Stars: 0 - Forks: 0

RagnarGrootKoerkamp/vim-jekyll-syntax Fork of emanuelen5/vim-jekyll-syntax

Vim syntax highlighting for Jekyll

Size: 3.91 KB - Last synced at: over 2 years ago - Pushed at: over 4 years ago - Stars: 0 - Forks: 0

RagnarGrootKoerkamp/stable_gonality

Language: C++ - Size: 8.79 KB - Last synced at: over 2 years ago - Pushed at: over 4 years ago - Stars: 0 - Forks: 0

RagnarGrootKoerkamp/problemtools Fork of Kattis/problemtools

Tools to manage problem packages using the Kattis problem package format.

Language: Python - Size: 2.82 MB - Last synced at: over 2 years ago - Pushed at: about 4 years ago - Stars: 0 - Forks: 1

RagnarGrootKoerkamp/checktestdata Fork of DOMjudge/checktestdata

checks integrity of test data in programming contests like the ACM ICPC

Language: M4 - Size: 508 KB - Last synced at: over 2 years ago - Pushed at: almost 5 years ago - Stars: 0 - Forks: 0

RagnarGrootKoerkamp/domjudge Fork of DOMjudge/domjudge

DOMjudge programming contest jury system

Language: PHP - Size: 72.7 MB - Last synced at: over 1 year ago - Pushed at: over 1 year ago - Stars: 0 - Forks: 0