Publications

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1579 Publications visible to you, out of a total of 1579

Abstract

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Authors: L. Shingles, S. A. Sim, M. Kromer, K. Maguire, M. Bulla, C. Collins, C. P. Ballance, A. S. Michel, C. A. Ramsbottom, F. K. Ropke, I. R. Seitenzahl, N. B. Tyndall

Date Published: 1st Jun 2019

Publication Type: InProceedings

Abstract

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Authors: G. Ferrand, D. Warren, M. Ono, S. Nagataki, F. Röpke, I. Seitenzahl

Date Published: 1st Jun 2019

Publication Type: InProceedings

Abstract

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Authors: F. Lach, F. Röpke, M. Kromer

Date Published: 1st Jun 2019

Publication Type: InProceedings

Abstract

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Authors: S. Gronow, F. Röpke

Date Published: 1st Jun 2019

Publication Type: InProceedings

Abstract

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Authors: Nils Schween, Nico Meyer-Hübner, Philipp Gerstner, Vincent Heuveline

Date Published: 30th May 2019

Publication Type: Journal

Abstract (Expand)

The ever increasing amount of genomic and meta-genomic sequence data has transformed biology into a data-driven and compute-intensive discipline. Hence, there is a need for efficient algorithms and scalable implementations thereof for analysing such data. We present GENESIS, a library for working with phylogenetic data, and GAPPA, an accompanying command line tool for conducting typical analyses on such data. While our tools primarily target phylogenetic trees and phylogenetic placements, they also offer a plethora of functions for handling genetic sequences, taxonomies, and other relevant data types. The tools aim at improved usability at the production stage (conducting data analyses) as well as the development stage (rapid prototyping): The modular interface of GENESIS simplifies numerous standard high-level tasks and analyses, while allowing for low-level customization at the same time. Our implementation relies on modern, multi-threaded C++11, and is substantially more com-putationally efficient than analogous tools. We already employed the core GENESIS library in several of our tools and publications, thereby proving its flexibility and utility. GENESIS and GAPPA are freely available under GPLv3 at http://github.com/lczech/genesis and http://github.com/lczech/gappa.

Authors: Lucas Czech, Pierre Barbera, Alexandros Stamatakis

Date Published: 28th May 2019

Publication Type: Journal

Abstract

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Authors: Daria B. Kokh, Tom Kaufmann, Bastian Kister, Rebecca C. Wade

Date Published: 24th May 2019

Publication Type: Journal

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