samuell

flowbase

A Flow-based Programming inspired micro-framework / un-framework for Go (Golang)

sciluigi

A light-weight wrapper library around Spotify's Luigi workflow library to make writing scientific workflows more fluent, flexible and modular

rdf2smw

Convert RDF to Semantic MediaWiki facts in MediaWiki XML format, with a standalone commandline tool

RDFIO

RDF triples import, export and PHP SPARQL endpoint for Semantic MediaWiki

awesome-fbp

Awesome Flow-Based Programming (FBP) Resources

awesome-scientific-go

Go libraries for scientific computing

devbox-golang

A Vagrant box with Ansible provisioning for setting up a vim-based Go(lang) development environment

gccontent-benchmark

Benchmarking different languages for a simple bioinformatics task (Counting the GC fraction of DNA in a FASTA file)

mdnote

I couldn't find a suitable simple Markdown Notebook, so I "created an own"

scipipe

Robust, flexible and resource-efficient pipelines using Go and the commandline

samuell/awesome-fbp

Awesome Flow-Based Programming (FBP) Resources

samuell/scicommander

Run shell commands in a scientifically reproducible and robust way

samuell/awesome-bioinformatics-gotchas

Gotchas from the trenches of bioinformatics

samuell/rc

Some of my rc files, like .vimrc etc, so I can easily set it up on new machines/accounts.

samuell/fastxviz

Small utility to print distribution of sequence/read lengths in fastq files

samuell/amira-fork

A tool to detect acquired AMR genes directly from long read sequencing data.

samuell/bacalhau-fork

Compute over Data framework for public, transparent, and optionally verifiable computation

samuell/bash-preexec-fork

⚡ preexec and precmd functions for Bash just like Zsh.

samuell/biolocal

samuell/CarpeDeam-fork

Ancient Metagenome Assembler For Heavily Damaged Datasets

samuell/edx-platform-fork

The Open edX LMS & Studio, powering education sites around the world!

samuell/emu-fork

samuell/friction-fork

Friction Motion Graphics

samuell/genesis-fork

A generative world for general-purpose robotics & embodied AI learning.

samuell/granges-fork

samuell/graphiti-fork

Build and query dynamic, temporally-aware Knowledge Graphs

samuell/Icarust-fork

A fully featured MinKNOW simulator for testing read until experiments.

samuell/kleborate-fork

samuell/mm2-plus-fork

Fast long-read mapper and whole-genome aligner (accelerated version of minimap2)

samuell/MolecularNodes_fork

Toolbox for molecular animations in Blender, powered by Geometry Nodes.

samuell/neva-fork

🌊 Dataflow programming language with static types and implicit parallelism. Compiles to machine code and Go

samuell/nf-linter

A linter for Nextflow built on top of the Nextflow Language Server

samuell/perfect-bioinformatic-tools-fork

What should perfect bioinformatic tools be like?

samuell/qlever-fork

Very fast SPARQL Engine, which can handle very large knowledge graphs like the complete Wikidata, offers context-sensitive autocompletion for SPARQL queries, and allows combination with text search. It's faster than engines like Blazegraph or Virtuoso, especially for queries involving large result sets.

samuell/semnote

samuell/sierra-local-fork

Retrieve HIVdb algorithm as XML and apply locally to HIV sequences

samuell/SKESA

SKESA assembler

samuell/spacer

CLI tool to insert spacers when command output stops

samuell/SwitchFinder-fork

samuell/syri-fork

Synteny and Rearrangement Identifier