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Hi there, I'm Clemens

I'm a data scientist with a background in computational biology and bioinformatics who likes to explore data to generate hypotheses, to gain new insights and to solve problems.

Technology

Linux Shell R Python Python MySQL Docker Git GitHub GitLab CircleCI

Currently learning

Azure

Publications

ORCID

Contributions

Project repository publication
SNAPPY: SNAPPY Nucleic Acid Processing Pipeline https://github.com/bihealth/snappy-pipeline unpublished
SCelVis: Easy Single-Cell Visualization https://github.com/bihealth/scelvis https://doi.org/10.7717/peerj.8607
DigestiFlow: from BCL to FASTQ with ease https://github.com/bihealth/digestiflow-demux https://doi.org/10.1093/bioinformatics/btz850
SigsPack: a package for cancer mutational signatures https://github.com/bihealth/SigsPack https://doi.org/10.1186/s12859-019-3043-7
HLA-MA: simple yet powerful matching of samples using HLA typing results https://github.com/bihealth/hlama https://doi.org/10.1093/bioinformatics/btx132

Clemens Messerschmidt's Projects

base_mask icon base_mask

Python functions to check base masks and translate to bcl2fastq flavour

cd-diagram icon cd-diagram

Critical difference diagram with Wilcoxon-Holm post-hoc analysis.

cubi-tk icon cubi-tk

CUBI Tooling for SODAR, VarFish et al.

keras-vis icon keras-vis

Neural network visualization toolkit for keras

mantis icon mantis

Microsatellite Analysis for Normal-Tumor InStability

optitype icon optitype

Precision HLA typing from next-generation sequencing data

proc icon proc

Display and analyze ROC curves in R and S+

rodeos-ingest icon rodeos-ingest

Code for ingesting omics data into omics storage based on iRODS capabilities

speed2 icon speed2

SPEED2:Inferring upstream pathway activity from differential gene expression

umi-tools icon umi-tools

Tools for handling Unique Molecular Identifiers in NGS data sets

unofficial_irods_documentation icon unofficial_irods_documentation

Best Practices and System Administrator documentation for iRODS systems by the community. NOT affiliated with RENCI or the iRODS project.

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