Constantin Ahlmann-Eltze

PhD Student

EMBL Heidelberg

Biography

I am a bridging postdoc at the EMBL Heidelberg in the group of Wolfgang Huber. In September 2023, I defended my PhD and am currently exploring opportunities for my time after EMBL.

I develop statistical methods and tools for the analysis of cutting edge biological data. I maintain ten R packages which are published on CRAN and Bioconductor and total more than 100,000 downloads per month. I have written multiple academic papers and you can find my full publication record on Google scholar. During my PhD, I worked on statistical developments for single-cell data (project 1, 2, and 3). Before that I worked on proteomics and clustering high-dimensional categorical data.

Recent Posts

My R package downloads

Download statistics of my R packages.

Sep 10, 2023 1 min read

ggplot2 minimum point size

Remove the stroke around points to map the size argument accurately.

Jun 9, 2023 2 min read

What is the delta method?

Find the standard deviation of $g(X)$

Feb 10, 2023 3 min read

Circle of Confusion

Visualization of test classification and underlying ground truth

Sep 8, 2021 1 min read

Gamma-Poisson Distribution

Important properties and mathematical definitions

Last updated on Jan 24, 2021 4 min read

Projects

transformGamPoi

Variance stabilizing transformation for Gamma Poisson distributed data

einsum

Einstein Summation for Arrays in R

glmGamPoi

Fit Gamma-Poisson Generalized Linear Models Reliably

sparseMatrixStats

Implementation of the matrixStats API for sparse matrices

proDA

R package for “Protein Differential Abundance Analysis for Label-Free Mass Spectrometry Data”

ggupset

Plot a combination matrix instead of the standard x-axis and create UpSet plots with ggplot2.

mixdir

R package for clustering high dimensional categorical data

tidygenomics

Tidy Verbs for Dealing with Genomic Data Frames

ggsignif

A ggplot2 extension to add significance brackets

iGEM 2014

Student Competition for Synthetic Biology

Recent Publications

Comparison of transformations for single-cell RNA-seq data

Theoretical and empirical analysis of transformation methods for single-cell data.

Constantin Ahlmann-Eltze, Wolfgang Huber (2023). Nat. Methods

PDF Project DOI Reproducibility R package Github Shiny App

Analysis of multi-condition single-cell data with latent embedding multivariate regression

A new method to analyze multi-condition single-cell data without clustering

Constantin Ahlmann-Eltze, Wolfgang Huber (2023). bioR$\chi$iv

PDF DOI Github

glmGamPoi: fitting Gamma-Poisson generalized linear models on single cell count data

Fit Gamma-Poisson Generalized Linear Models Reliably.

Constantin Ahlmann-Eltze, Wolfgang Huber (2020). Bioinformatics

PDF Project DOI Reproducibility R package Github

proDA: Probabilistic Dropout Analysis for Identifying Differentially Abundant Proteins in Label-Free Mass Spectrometry

Decide which proteins are differentially abundant in label-free mass spectormetry without imputation.

Constantin Ahlmann-Eltze, Simon Anders (2019). bioR$\chi$iv

PDF Project DOI Reproducibility R package Github

MixDir: Scalable Bayesian Clustering for High-Dimensional Categorical Data

Cluster high-dimensional categorical observations using an approximate Bayesian inference algorithm

Constantin Ahlmann-Eltze, Christopher Yau (2018). IEEE DSAA

PDF Project DOI Reproducibility R package Github

See all publications