ryandkuster

ryandkuster's Stars

• rust-lang/rustlings

  :crab: Small exercises to get you used to reading and writing Rust code!

  Language:Rust55.3k34168610.3k

• brendangregg/FlameGraph

  Stack trace visualizer

  Language:Perl17.6k4821502k

• mnielsen/neural-networks-and-deep-learning

  Code samples for my book "Neural Networks and Deep Learning"

  Language:Python16.2k1.1k06.6k

• lysyi3m/macos-terminal-themes

  Color schemes for default macOS Terminal.app

  Language:Swift6k8126891

• MichalDanielDobrzanski/DeepLearningPython

  neuralnetworksanddeeplearning.com integrated scripts for Python 3.5.2 and Theano with CUDA support

  Language:Python2.8k135311.3k

• opsengine/cpulimit

  CPU usage limiter for Linux

  Language:C1.7k6981271

• vgteam/vg

  tools for working with genome variation graphs

  Language:C++1.1k472.1k195

• nf-core/rnaseq

  RNA sequencing analysis pipeline using STAR, RSEM, HISAT2 or Salmon with gene/isoform counts and extensive quality control.

  Language:Nextflow944157674713

• cerlymarco/tsmoothie

  A python library for time-series smoothing and outlier detection in a vectorized way.

  Language:Jupyter Notebook7431726100

• DerrickWood/kraken2

  The second version of the Kraken taxonomic sequence classification system

  Language:C++74128844275

• marbl/canu

  A single molecule sequence assembler for genomes large and small.

  Language:C++664542.3k179

• Dirtywave/M8HeadlessFirmware

  M8 Headless Precompiled Firmware

  51932927

• malonge/RagTag

  Tools for fast and flexible genome assembly scaffolding and improvement

  Language:Python482818750

• lh3/minigraph

  Sequence-to-graph mapper and graph generator

  Language:C4232911638

• pangenome/pggb

  the pangenome graph builder

  Language:Shell4041417844

• gpertea/gffread

  GFF/GTF utility providing format conversions, region filtering, FASTA sequence extraction and more

  Language:C++381913539

• jenniferlu717/Bracken

  Bracken (Bayesian Reestimation of Abundance with KrakEN) is a highly accurate statistical method that computes the abundance of species in DNA sequences from a metagenomics sample.

  Language:C++2971326750

• dariober/ASCIIGenome

  Text Only Genome Viewer!

  Language:Java20888215

• ewels/sra-explorer

  Web application to explore the Sequence Read Archive.

  Language:HTML20394429

• pangenome/odgi

  Optimized Dynamic Genome/Graph Implementation: understanding pangenome graphs

  Language:C++1981314941

• wdecoster/chopper

  Language:Rust15973213

• kaist-ina/BWA-MEME

  BWA-MEME: Faster BWA-MEM2 using learned-index

  Language:C++11392814

• nf-core/pangenome

  Renders a collection of sequences into a pangenome graph. https://doi.org/10.1093/bioinformatics/btae609.

  Language:Nextflow78646216

• chfi/gfaestus

  GFA visualizer, GPU-accelerated using Vulkan

  Language:Rust689115

• pangenome/smoothxg

  linearize and simplify variation graphs using blocked partial order alignment

  Language:C++577337

• jltsiren/gbwt-rs

  GBWT in Rust

  Language:Rust42514

• UCLA-VAST/minimap2-acceleration

  Hardware Acceleration of Long Read Pairwise Overlapping in Genome Sequencing: Open Source Repository

  Language:C336912

• pangenome/gafpack

  convert variation graph alignments to coverage maps over nodes

  Language:Rust21302

• somme89/rapidNJ

  Fast implementation of the Neighbour-Joining method for phylogenetic inference

  Language:C++15178

• ryandkuster/readsynth

  metagenome simulation for targeted and reduced-representation sequencing

  Language:Shell21140