Author

Bahar Alipanahi

University of FloridaORCID 0000-0002-8562-8459Unclaimed ORCID profile · follow to get notified of new preprints

Biology Disciplines

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Signature Assays, Organisms & Methods

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Approach:statistical model· 3 Research Focus:variant calling· 2 Organism:bacteria (other)· 1 Assay:long-read sequencing· 1 Assay:metagenomics· 1 Research Focus:variant effect prediction· 1

Frequent Co-Authors

Christina A. BoucheriD· 5 shared Martin D. MuggliiD· 3 shared Leena SalmelaiD· 2 shared Simon J. PuglisiiD· 2 shared Alan KuhnleiD· 1 shared Jarno AlankoiD· 1 shared Jonathen Settle· 1 shared Musa A. Jundi· 1 shared

Activity by Year

2016-2021 · peak 1/yr

Co-Author Collaboration Network

10 top collaborators · 20 mutual co-author links

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5 shared papersBioinformatics

Christina A. BoucherORCID

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Author profile →

5 papers

Recent·Most cited

Buffering Updates Enables Efficient Dynamic de Bruijn Graphs

Jarno Alanko, Bahar Alipanahi, Jonathen Settle, Christina A. Boucher, Travis Gagie

The paper introduces BufBOSS, a compressed dynamic de Bruijn graph that improves update efficiency by buffering changes, outperforming existing tools in time, memory, and deletion speed.

Computational and Structural Biotechnology Journal · Jan 1, 2021Peer-reviewedBioinformatics

Succinct Dynamic de Bruijn Graphs

Bahar Alipanahi, Alan Kuhnle, Simon J. Puglisi, Leena Salmela, Christina A. Boucher

This paper introduces DynamicBOSS, a succinct dynamic de Bruijn graph representation that supports unlimited additions and deletions of nodes and edges, outperforming existing methods for large-scale datasets.

Bioinformatics · May 21, 2020Peer-reviewedBioinformatics

Building Large Updatable Colored de Bruijn Graphs via Merging

Martin D. Muggli, Bahar Alipanahi, Christina A. Boucher

The paper introduces an algorithm to merge succinct de Bruijn graph representations, enabling efficient construction of large colored de Bruijn graphs with reduced space usage.

Bioinformatics · Jun 4, 2019Peer-reviewedBioinformatics

Resistome SNP Calling via Read Colored de Bruijn Graphs

Bahar Alipanahi, Martin D. Muggli, Musa A. Jundi, Noelle Robertson Noyes, Christina A. Boucher

The paper introduces LueVari, a reference-free SNP caller for metagenomic data that reliably detects SNPs in AMR genes across varying coverage levels.

bioRxiv · Apr 18, 2018 · PreprintBioinformatics

Disentangled Long-Read De Bruijn Graphs via Optical Maps

Bahar Alipanahi, Leena Salmela, Simon J. Puglisi, Martin D. Muggli, Christina A. Boucher

The paper disentangles de Bruijn graphs using optical maps to improve long-read assembly efficiency and accuracy.

bioRxiv · Dec 14, 2016 · PreprintBioinformatics