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1687 Publications visible to you, out of a total of 1687
A time step reduction method for Multi-Period Optimal Power Flow problems

Abstract

Not specified

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

Date Published: 30th May 2019

Publication Type: Journal

Genesis and Gappa: Processing, Analyzing and Visualizing Phylogenetic (Placement) Data

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

Machine Learning Analysis of τRAMD Trajectories to Decipher Molecular Determinants of Drug-Target Residence Times

Abstract

Not specified

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

Date Published: 24th May 2019

Publication Type: Journal

Semantic Matching of Documents from Heterogeneous Collections: A Simple and Transparent Method for Practical Applications

Abstract

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Author: Mark-Christoph Müller

Date Published: 23rd May 2019

Publication Type: InProceedings

A new method for the construction of coarse-grained models of large biomolecules from low-resolution cryo-electron microscopy data

Abstract

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Authors: Yuwei Zhang, Kelin Xia, Zexing Cao, Frauke Gräter, Fei Xia

Date Published: 15th May 2019

Publication Type: Journal

Higgs Bundles and Geometric Structures on Manifolds

Abstract (Expand)

Geometric structures on manifolds became popular when Thurston used them in his work on the geometrization conjecture. They were studied by many people and they play an important role in higher Teichmüller … theory. Geometric structures on a manifold are closely related with representations of the fundamental group and with flat bundles. Higgs bundles can be very useful in describing flat bundles explicitly, via solutions of Hitchin’s equations. Baraglia has shown in his Ph.D. Thesis that Higgs bundles can also be used to construct geometric structures in some interesting cases. In this paper, we will explain the main ideas behind this theory and we will survey some recent results in this direction, which are joint work with Qiongling Li.

Author: Daniele Alessandrini

Date Published: 10th May 2019

Publication Type: Journal

Using RAxML-NG in Practice

Abstract

Not specified

Authors: Alexey M. Kozlov, Alexandros Stamatakis

Date Published: 6th May 2019

Publication Type: Journal

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