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749 research data, page 1 of 75

Disease transmission and clinical pathways models

This repository contains the disease transmission and clinical pathways models used in our modelling study, "Reducing disease burden in an influenza pandemic by targeted delivery of%0A neuraminidase inhibitors%3A mathematical models in the Australian context", and is distributed under the terms of the GNU General Public License (version 3 or any later version).

The DataUp source code package

Strasser, C.; Kunze, J; Abrams, S; Cruse, P (2014)
Publisher: ZENODO
The DataUp source code package includes three components: (1) the Excel add-in; (2) the public web client; and (3) the private web service that mediates between the add-in and client and the ONEShare repository.  All code is written in C# and relies on the .NET framework.

HSA: Version used in Zou et al. integrating multi-track Hi-C data for genome-scale reconstruction of 3D chromatin structure

This upload contains the source code and user manual of HSA, the version used in Zou et al. integrating multi-track Hi-C data for genome-scale reconstruction of 3D chromatin structure. HSA is a flexible tool that jointly analyzes multiple contact maps of Hi-C data to infer 3D chromatin structure of the genome. More information can be found at: http://ouyanglab.jax.org/hsa/. If you use the software, we would be grateful if you cited the following paper: Zou, C., Zhang, Y., Ouyang, Z. (...

vsearch: VSEARCH version 1.0.16

Torbjørn Rognes; Frédéric Mahé; xflouris (2015)
Publisher: Zenodo
Integrate patches to the code from Debian

HiCUP: pipeline for mapping and processing Hi-C data

HiCUP is a bioinformatics pipeline for processing Hi-C data.  For full instructions on how to use HiCUP please read the markdown files (text format) in the 'Documentation' folder (we suggest you begin by reading the 'overview.md' file). Full documentation is also provided on the HiCUP homepage at: http://www.bioinformatics.babraham.ac.uk/projects/hicup

Pvalues Version 0.1

Robert Lanfear (2014)
Publisher: Zenodo
This is first release of software for text mining p values from pubmed xml files.

Kvik: Kvik: Three-Tier Data Exploration Tools For Flexible Analysis Of Genomic Data In Epidemiological Studies

Bjørn Fjukstad (2015)
Publisher: Zenodo
An interactive system for exploring the dynamics of carcinogenesis through integrated studies of biological pathways and genomic data. It provides researchers with a lightweight web application for navigating through biological pathways from the KEGG database integrated with genomic data from the NOWAC postgenome biobank.

integrated-lts-cbm v1.0.0

Ben DeVries (2016)
Publisher: Zenodo
Data and R code accompanying the paper: DeVries et al. 2016. PLOS ONE, in press.

AMPds: Conversion scripts for AMPds R2

Stephen Makonin (2015)
Publisher: Zenodo
Scripts and things used to create the AMPds dataset.

ObsPy 0.10.2

The ObsPy Development Team (2015)
Publisher: Zenodo
ObsPy: A Python Toolbox for seismology/seismological observatories. ObsPy is an open-source project dedicated to provide a Python framework for processing seismological data. It provides parsers for common file formats, clients to access data centers and seismological signal processing routines which allow the manipulation of seismological time series (see Beyreuther et al. 2010, doi: 10.1785/gssrl.81.3.530 ; Megies et al. 2011, doi: 10.1785/gssrl.81.3.530). The goal of the ObsPy proj...