The Marschall Lab

Our research group, headed by Prof. Dr. Tobias Marschall, mainly works on genome data science, with a focus on novel algorithms and software tools for computational genomics. We address computational challenges arising from latest sequencing technologies to further our understanding of genomic variation and their consequences on phenotypic variation and disease. Over the past years, a special emphasis has been on methods for haplotype reconstruction, genome assembly, structural variation analysis, pangenomics and single-cell genomics.


The Marschall Lab website is online

September 12, 2021

Our new group website is online! Thanks to free software and the work of Adam Phillippy’s lab, the “perfect wheel” already existed and we did not have to reinvent anything!

Semi-automated assembly of high-quality diploid human reference genomes
Nature, October 19, 2022
Jarvis ED* … Ebert PMarschall T … Human Pangenome Reference Consortium
Constructing Founder Sets Under Allelic and Non-Allelic Homologous Recombination
22nd International Workshop on Algorithms in Bioinformatics (WABI 2022), August 26, 2022
Bonnet K, Marschall T, Doerr D
The membrane-active polyaminoisoprenyl compound NV716 re-sensitizes Pseudomonas aeruginosa to antibiotics and reduces bacterial virulence
Commun Biol, August 25, 2022
Wang G, Brunel JM, Preusse M, Mozaheb N, Willger SD, Larrouy-Maumus G, Baatsen P, Häussler S, Bolla JM, Van Bambeke F
A Draft Human Pangenome Reference
bioRxiv, July 9, 2022
Liao W*, Asri M*, Ebler J*, Doerr D, Haukness M, Hickey G, Lu S, Lucas JK, Monlong J, Abel HJ, Buonaiuto S, Chang XH, Cheng H, Chu J, Colonna V, Eizenga JM, Feng X, Fischer C, Fulton RS, Garg S, Groza C, Guarracino A, Harvey WT, Heumos S, Howe K, Jain M, Lu T, Markello C, Martin FJ, Mitchell MW, Munson KM, Mwaniki MN, Novak AM, Olsen HE, Pesout T, Porubsky D, Prins P, Sibbesen JA, Tomlinson C, Villani F, Vollger MR, Human Pangenome Reference Consortium, Bourque G, Chaisson MJ, Flicek P, Phillippy AM, Zook JM, Eichler EE, Haussler D, Jarvis ED, Miga KH, Wang T, Garrison E, Marschall T, Hall I, Li H, Paten B

Legend: * joint first author; joint last author


A short-read genotyper for various types of genetic variants (such as SNPs, indels and structural variants) represented in a pangenome graph.


A tool for read-based phasing.


A tool to align long reads to genome graphs.


Minimizer based sparse de Bruijn Graph constructor