211,421 Works

Unidata Integrated Data Viewer

Don Murray, Jeff McWhirter, Stuart Weir, Yuan Ho & Julien Chastang
The Unidata Integrated Data Viewer (IDV) is a software application for analyzing and displaying geoscience data. The IDV emphasizes interactive three-dimensional visualization and integration of diverse data types. The IDV software is available for Windows, Mac OS X, and various flavors of Unix including Linux, and Solaris.

GiMPy 1.3

Ted Ralphs & Aykut Bulut
Graph Methods in Python (GiMPy) is a Python graph library containing pure Python implementations of a variety of graph algorithms. The goal is clarity in implementation rather than eficiency. Most methods have an accompanying visualization and are thus appropriate for use in the classroom. Documentation for the API is here: http://pythonhosted.org/coinor.gimpy Installation: easy_install coinor.gimpy

Gender Research and the Role of Feminist Theory in Archaeology (2014 Chacamool presentation)

Ben Marwick & Ian Kretzler
This repository contains the code used to generate the figures in the presentation. The data can be obtained freely from http://dfr.jstor.org/ We can share our data by request, but we’re not sure that the JSTOR terms of service allow us to post it publically.

SynPAnal Program

Sang Lee
Software for Rapid Quantification of the Density and Intensity of Protein Puncta from Fluorescence Microscopy Images of Neurons

least

Least soil moisture duration

R markdown files for Mallon, E. B. et al. Acute and chronic gregarisation are associated with distinct DNA methylation fingerprints in desert locusts. Sci. Rep. 6, 35608; doi: 10.1038/srep35608 (2016).

Eamonn Mallon
Several scripts needed to produce graphs and analysis for locust ms-aflp data.

real_data and bootstrap_data produce the phist for over the range of tolerances.

These are combined by Figure_1_bootstrap_plot.

tolerance10-20 calculates the phist for the chosen tolerances.

Figure_2 uses this data as the basis for the ms-aflp analysis and a modified pcoa graph which produces figure 2 in the paper.

Matlab scripts

& Freddie Salsbury
A Matlab script to perform principal component analysis on molecular dynamics trajectories and construct free energy surfaces using predominant principal components.

C++ code from \"Estimating contemporary migration rates: effect and joint inference of inbreeding, null alleles and mistyping\"

Juan José Robledo-Arnuncio & Oscar E. Gaggiotti
C/C++ code implementing the Bayesian estimation method described in:

Robledo-Arnuncio JJ, Gaggiotti OE (in press) Estimating contemporary migration rates: effect and joint inference of inbreeding, null alleles and mistyping. Journal of Ecology.

An executable file for Windows OS, along with the User Manual and test data sets will soon be available here.



BifLib (v1.0)

Martin O'Reilly
Library for generating BIFs (Basic Image Features) from images.

Leroux et al_StDMs_RCode

Shawn Leroux
R Code for Leroux et al. Stoichiometry distribution models: ecological stoichiometry at the landscape scale

Leroux et al_StDMs_RCode

Shawn Leroux
R Code for Leroux et al. Stoichiometry distribution models: ecological stoichiometry at the landscape scale

Python codes for solving modes of anisotropic waveguides with arbitrary permittivity and permeability

These are python codes which can be used to solve transverse modes of waveguides with arbitrary permittivity and permeability.

Data analysis commands and R code for analysis

David Needham
This file contains all of the commands used in sequence data analysis and R code utilized for statistics and figure generation.

Finite Pulse Effects in Single and Double Quantum Spectroscopies

Václav Perlík, Jürgen Hauer &
These Mathematica notebooks are a supplementary material to manuscript [1] and contain analytical expressions of 2D spectra of a 3-level electronic system probed by Lorentzian laser pulses.
[1] V. Perlík, J. Hauer and F. Šanda, Finite Pulse Effects in Single and Double Quantum Spectroscopies, J. Opt. Soc. Am. B, 2016

Elektra 0.8.19

Markus Raab
Elektra serves as a universal and secure framework to access configuration parameters in a global, hierarchical key database. Elektra provides a mature, consistent and easily comprehensible API. Its modularity effectively avoids code duplication across applications and tools regarding configuration tasks. Elektra abstracts from cross-platform-related issues and allows applications to be aware of other applications' configurations, leveraging easy application integration.

New draft item

Robert Carlsen, Robert Flanagan, Matthew Gidden, Ryan Hodge, Meghan McGarry, , Baptiste Mouginot, Anthony Scopatz & Paul Wilson
Release 1.5.0 of the Cyclus Project:
Cyclus is the next-generation agent-based nuclear fuel cycle simulator, providing flexibility to users and developers through a dynamic resource exchange solver and plug-in, user-developed agent framework.The goal of Cyclus is to enable a broad spectrum of fuel cycle simulation while providing a low barrier to entry for new users and agent developers. Cyclus engages with potential module developers and encourages them to join a vibrant community in an expanding ecosystem....

Perseids-Project/Journey-Of-The-Hero: Release 1.0.0

Bridget Almas, Thibault Clerice &
Official Release of the Journey of the Hero code.

Poissonconsulting/Sgpdatr: Sage Grouse Lek Areal Disturbance R Data Package

Joe Thorley
For resubmission

Kirstiejane/Brainsforpublication: Test

Kirstie Whitaker & Michael Notter
test

Kirstiejane/Brainsforpublication: 2017-01-30

Kirstie Whitaker & Michael Notter
This is the first release of the BrainsForPublication code repository. All typos, edits and suggestions are welcome!

Proycon/Clam: V2.1.8

Maarten Van Gompel
Minor update release (adds loadmetadata parameter to CLAMClient API)

WoodModLCAAnalysis.Rmd

Michael Burnard
R file for reproducing data output in associated publication (link coming when published).
https://dx.doi.org/10.6084/m9.figshare.4596142
https://dx.doi.org/10.6084/m9.figshare.4596124
https://dx.doi.org/10.6084/m9.figshare.4596103

Cboettig/Openscience-Whitepaper: Open Science: Balancing Individual Incentives With Common Good

Carl Boettiger
This release is a fully re-written draft relative to v0.1. This whitepaper was written in response to seven questions on open science issued by invitation to the NSF/NIH ImagineU Conference (http://www.ncsa.illinois.edu/Conferences/ImagineU/) to be held on March 8-9, 2017. These answers reflect my own experiences and opinions at the time of writing, and focus primarily though not exclusively on examples from my own field of ecology and evolutionary biology. This is a working paper whose primary...

Cboettig/Openscience-Whitepaper: Open Science: Balancing Individual Incentives With Common Good

Carl Boettiger
This whitepaper was written in response to seven questions on open science issued by invitation to the NSF/NIH ImagineU Conference (http://www.ncsa.illinois.edu/Conferences/ImagineU/) to be held on March 8-9, 2017. These answers reflect my own experiences and opinions at the time of writing, and focus primarily though not exclusively on examples from my own field of ecology and evolutionary biology. This is a working paper whose primary goal is to spark discussion on the topic, and may...

Peckhams/Topoflow: Topoflow 3.5

Scott D. Peckham
This is a Python package that contains the TopoFlow spatial hydrologic model. It includes: (1) the EMELI plug-and-play modeling framework, (2) a set of 20 plug-and-play, model components with Basic Model Interface (BMI), (3) a set of low-level utilities used by all components, (4) complete documentation in the topoflow/docs folder, (5) several sets of example data for testing in the topoflow/examples folder. The set of model components includes many hydrologic process components: 3 channel routing,...

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