sirselim

modern-unix

A collection of modern/faster/saner alternatives to common unix commands.

miniforge

A conda-forge distribution.

jabref

Graphical Java application for managing BibTeX and biblatex (.bib) databases

radian

A 21 century R console

esquisse

RStudio add-in to make plots interactively with ggplot2

latex-yearly-planner

Digital planner for Supernote and ReMarkable // Support Ukraine 🇺🇦 https://savelife.in.ua/en

rmview

A live viewer for reMarkable written in PyQt5

bonito

A PyTorch Basecaller for Oxford Nanopore Reads

amr

AMRFinderPlus - Identify AMR genes and point mutations, and virulence and stress resistance genes in assembled bacterial nucleotide and protein sequence.

Clair3

Clair3 - Symphonizing pileup and full-alignment for high-performance long-read variant calling

opencga

An Open Computational Genomics Analysis platform for big data genomics analysis. OpenCGA is maintained and develop by its parent company Zetta Genomics. Please contact support@zettagenomics.com for bug report and feature requests.

ARMOR

Light-weight Snakemake workflow for preprocessing and statistical analysis of RNA-seq data

f5c

Ultra-fast methylation calling and event alignment tool for nanopore sequencing data (supports CUDA acceleration)

jetson_nanopore_sequencing

A place to collate notes and resources of our journey into porting nanopore sequencing over to accessible, portable technology.

submission_checklist

A checklist to help you avoid all those minor errors when submitting a scientific manuscript

sqlquery

Htmlwidget to write SQL queries

human_genomics_pipeline

A Snakemake workflow to process single samples or cohorts of Illumina paired-end sequencing data (WGS or WES) using trim galore/bwa/GATK4/parabricks.

iva

Generic Interactive Variant Analysis browser

rmarkdown-vscode

This extension provides a few snippets and key bindings for common tasks in .Rmd documents, such as inserting code chunks and including images using knitr::include_graphics(). Additionally, it aims to provide some helper functions for Bookdown and Blogdown.

cpcinema

Create color palettes and extract them from @colorpallete.cinema instagram photos.

minotourapp

Minotour API, web and client code

hpg-methyl

An ultrafast and highly sensitive Next-Generation Sequencing (NGS) read mapper and methylation extractor.

WES_ShinyDiscover

A Shiny interface to filter and identify variants of interest from whole exome data

POx_POC_pipeline

Point of care species ID by kraken2 ONT read classification for Xaiver platform

nanodip

Nanopore Digital Pathology - NanoDiP, the Nanopore companion of EpiDiP

cancer-seq-pipeline

Bpipe-based pipeline for processing cancer genomics data in fastq format through to annotated variants in a simple report.

ga-good-practice

ga-workshop-tutorial

tidy-projects

bioinformatics-containers

Docker containers used by cancer-seq-pipeline.