const-ae

ggsignif

Easily add significance brackets to your ggplots

ggupset

Combination matrix axis for 'ggplot2' to create 'UpSet' plots

glmGamPoi

Fit Gamma-Poisson Generalized Linear Models Reliably

lemur

Latent Embedding Multivariate Regression

sparseMatrixStats

Implementation of the matrixStats API for sparse matrices

transformGamPoi-Paper

transformGamPoi

Variance stabilizing transformation for Gamma Poisson distributed data

mixdir

Cluster high dimensional categorical datasets

proDA

Protein Differential Abundance for Label-Free Mass Spectrometry https://const-ae.github.io/proDA/

pyLemur

A Python implementation of the LEMUR algorithm for analyzing multi-condition single-cell RNA-seq data.

einsum

Einstein Summation for Arrays in R

CoefExplainer

Understand How to Interpret the Coefficients of a Categorical Linear Model

gggroupedscale

Grouped Discrete Scale for 'ggplot2'

matrixStats

R package: Methods that Apply to Rows and Columns of Matrices (and to Vectors)

Multi-omics-Data-Integration-course

Temporary Repository for the EMBO 2024 Multi-Omics course

transformGamPoi-ShinyApp

Source code for the Shiny App of Comparison of Transformations for Single-Cell RNA-Seq Data

diffgeo

Working with manifolds in R

ecosystem-packages

Registry for scverse ecosystem packages (https://scverse.org/packages/#ecosystem)

EMBO-multi-omics-course

EuroBioC2022

European Bioconductor conference website 2022

fullRankMatrix

This package will help users to create a full rank matrix out of their model matrix. It discovers linear dependent columns and then renames and removes columns to make the matrix full rank.

gallery

Gallery of ggplot2 extensions

Huber-group-EMBL.github.io

Huber group public webpage

lemur-Paper

Code to reproduce analysis in LEMUR paper

Manifolds.jl

Manifolds.jl aims to provide both a unified interface to define and use manifolds as well as a library of manifolds to use for your projects.

Manopt.jl

Optimization on Manifolds in Julia

MatrixGenerics

Playground for implementing S4 generics for matrix operations

MyWorkflowManager

This is a simple self-written R workflow manager for slurm systems that I use to automate the submission of jobs

single-cell-best-practices

https://www.sc-best-practices.org

SpatialData