Author

Ali Ghaffaari

Faculty of Technology and Center for Biotechnology (CeBiTec), Bielefeld University, GermanyORCID 0000-0002-0540-6515Unclaimed ORCID profile · follow to get notified of new preprints

Biology Disciplines

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Bioinformatics· 2 Genomics· 1

Signature Assays, Organisms & Methods

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Approach:statistical model· 3 Assay:whole-genome sequencing· 3 Organism:human· 2 Research Focus:variant calling· 2 Research Focus:benchmarking· 1 Research Focus:database / resource· 1 Research Focus:software / tool· 1

Frequent Co-Authors

Tobias MarschalliD· 3 shared Adam Novak· 1 shared Alexander SchönhuthiD· 1 shared Bas E Dutilh· 1 shared Ben Langmead· 1 shared Benedict PateniD· 1 shared Can AlkaniD· 1 shared Corinna Ernst· 1 shared

Activity by Year

2016-2025 · peak 1/yr

Co-Author Collaboration Network

10 top collaborators · 37 mutual co-author links

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3 shared papersBioinformatics

Tobias MarschallORCID

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3 papers

Recent·Most cited

DiVerG: Scalable Distance Index for Validation of Paired-End Alignments in Sequence Graphs

Ali Ghaffaari, Alexander Schönhuth, Tobias Marschall

DiVerG is a scalable data structure and algorithm for efficiently calculating distances in sequence graphs, outperforming PairG in speed and space efficiency for genomic applications.

bioRxiv · Feb 12, 2025 · PreprintBioinformatics

Fully-sensitive Seed Finding in Sequence Graphs Using a Hybrid Index

Ali Ghaffaari, Tobias Marschall

The paper introduces PSI, a fully-sensitive seed finding method for sequence graphs that outperforms GCSA2 in index size, query time, and sensitivity on simulated and human genome data.

Bioinformatics · May 13, 2019Peer-reviewedBioinformatics

Computational Pan-Genomics: Status, Promises and Challenges

Tobias Marschall, Manja Marz, Thomas Abeel, Louis Dijkstra, Bas E Dutilh, Ali Ghaffaari, Paul Kersey, Wigard Kloosterman, Veli Makinen, Adam Novak, Benedict Paten, David Porubsky, Eric RIVALS, Can Alkan, Jasmijn Baaijens, , Pisan

This paper reviews computational pan-genomics, discussing its status, potential, and challenges across multiple biological disciplines.

Briefings in Bioinformatics · Oct 21, 2016Peer-reviewedGenomics