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DamageProfiler: Fast damage pattern calculation for ancient DNA


Neukamm, Judith; Peltzer, Alexander; Nieselt, Kay (2021). DamageProfiler: Fast damage pattern calculation for ancient DNA. Bioinformatics, 37(20):3652-3653.

Abstract

Motivation: In ancient DNA research, the authentication of ancient samples based on specific features remains a crucial step in data analysis. Because of this central importance, researchers lacking deeper programming knowledge should be able to run a basic damage authentication analysis. Such software should be user-friendly and easy to integrate into an analysis pipeline.

Results: DamageProfiler is a Java based, stand-alone software to determine damage patterns in ancient DNA. The results are provided in various file formats and plots for further processing. DamageProfiler has an intuitive graphical as well as command line interface that allows the tool to be easily embedded into an analysis pipeline.

Availability: All of the source code is freely available on GitHub (https://github.com/Integrative-Transcriptomics/DamageProfiler).

Abstract

Motivation: In ancient DNA research, the authentication of ancient samples based on specific features remains a crucial step in data analysis. Because of this central importance, researchers lacking deeper programming knowledge should be able to run a basic damage authentication analysis. Such software should be user-friendly and easy to integrate into an analysis pipeline.

Results: DamageProfiler is a Java based, stand-alone software to determine damage patterns in ancient DNA. The results are provided in various file formats and plots for further processing. DamageProfiler has an intuitive graphical as well as command line interface that allows the tool to be easily embedded into an analysis pipeline.

Availability: All of the source code is freely available on GitHub (https://github.com/Integrative-Transcriptomics/DamageProfiler).

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38 citations in Scopus®
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Additional indexing

Item Type:Journal Article, refereed, original work
Communities & Collections:04 Faculty of Medicine > Institute of Evolutionary Medicine
Dewey Decimal Classification:610 Medicine & health
Uncontrolled Keywords:Statistics and Probability, Computational Theory and Mathematics, Biochemistry, Molecular Biology, Computational Mathematics, Computer Science Applications
Language:English
Date:25 October 2021
Deposited On:27 Apr 2021 13:49
Last Modified:25 Jun 2024 01:39
Publisher:Oxford University Press
ISSN:1367-4803
OA Status:Closed
Free access at:Publisher DOI. An embargo period may apply.
Publisher DOI:https://doi.org/10.1093/bioinformatics/btab190
PubMed ID:33890614
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