1,972 Works

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....

Widget \"save to Zotero\" from Open Journal Systems

Joel Alhuay-Quispe
Este es un archivo que contiene widget en javascript que permite que los artículos de una revista gestionada en OJS puedan ser guardadas directamente en Zotero.

Widget \"save to Zotero\" from Open Journal Systems

Joel Alhuay-Quispe
Este es un archivo que contiene widget en javascript que permite que los artículos de una revista gestionada en OJS puedan ser guardadas directamente en Zotero.

Analysis scripts for preferred direction and speed, speed tuning, and simulations.

Andrea Gaede
Note: You must enter the file path for the directories containing the specified data files.
The folders should be named: "2015-CALAN-PSTH-direction""2015-CALAN-PSTH-speed""2015-ZF-PSTH-direction""2015-ZF-PSTH-speed"

Analysis scripts for preferred direction and speed, speed tuning, and simulations.

Andrea Gaede
Note: You must enter the file path for the directories containing the specified data files.
The folders should be named: "2015-CALAN-PSTH-direction""2015-CALAN-PSTH-speed""2015-ZF-PSTH-direction""2015-ZF-PSTH-speed"

Pigeon preferred direction analysis (Figure 2)

Andrea Gaede
Script for analyzing and plotting pigeon data.

Code of Graphics for the presentation of \"Introduction to Fixed Point Iteration Method and its application\"

These files include the matlab code of the graphics for the presentation of "Introduction to Fixed Point Iteration Method and its application"

Ensemble MT-MrSBC and Ensemble ST-MrSBC systems

Francesco Serafino &
- MT-MrSBC & MT-MrSBC jar file- Zip file with dataset used for the experiments (They are dump databases generated on PostgreSQL 9.5)- Zip file with the 10-fold cross validation used for the experiments- Bat file "runExperiments.bat" for launch the system on Windows using several configuration files- Example configuration file "configuration.properties" for launching the system- A bunch of other files used by classic Mr-SBC system

Metaproteomic profile of an OMZ, version 1

Megan Duffy
repo for FISH 546: Bioinformatics for Environmental Sciences

This project documents work running an open source de novo peptide sequencing tool, Novor, and comparing it to peptide identification by traditional protein database searching.

JSTORr

Ben Marwick
Simple exploratory text mining and document clustering of journal articles from JSTOR's Data for Research service.

R-markdown for NHESS-2016-229

Rasmus Benestad, Kajsa Parding &
R-markdown script for the analysis in paper NHESS-2016-229 by Benestad et al.

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  • 2016
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