3,311 Works

Evolutionary spectrum inversion and analysis (Especia)

Ralf Quast
The Evolutionary spectrum inversion and analysis (Especia) file set provides ISO C++ code for the inverse modelling and analysis of intergalactic and interstellar absorption line regions seen in QSO spectra.Due to the use of evolution strategies with covariance matrix adaption, the inverse modelling procedure is highly competitive and capable of calculating the optimal spectral decomposition without requiring any particular initialisation.Additional highlights are the joint modelling and optimisation of the background continuum, and an accurate semi-analytic...

Additional file 3: of GLADIATOR: a global approach for elucidating disease modules

Yael Silberberg, Martin Kupiec & Roded Sharan
GLADIATOR code. (PY 16 kb)

Matlab Filter Function

Paola Torche
This Matlab function filters 1D noisy intensity with one the three filters: Window-Sinc, Gaussian, or Moving Average, and using the Point Spread Function Full Width at Half Maximum as unique input parameter.
Function developed for "Noise Reduction in Single Time Frame Optical DNA Maps",(2017), PLOS One.

Matlab Filter Function

Paola Torche
This Matlab function filters 1D noisy intensity with one the three filters: Window-Sinc, Gaussian, or Moving Average, and using the Point Spread Function Full Width at Half Maximum as unique input parameter.
Function developed for "Noise Reduction in Single Time Frame Optical DNA Maps",(2017), PLOS One.

street-network-typologies

Jorge Gil & Serra Miguel
R code to extract typologies of street networks based on network betweenness centrality measurements.This code has been used for the analysis of street network typologies in:
Berghauser Pont, M., Stavroulaki, G., Gil, J., Marcus, L., Serra, M., Hausleitner, B., Olsson, J., Abshirini, E., Dhanani, A. (2017). ´Quantitative comparison of cities: Distribution of street and building types based on density and centrality measures ´. Proceedings XI space syntax conference, Lisbon.

street-network-typologies

Jorge Gil & Serra Miguel
R code to extract typologies of street networks based on network betweenness centrality measurements.This code has been used for the analysis of street network typologies in:
Berghauser Pont, M., Stavroulaki, G., Gil, J., Marcus, L., Serra, M., Hausleitner, B., Olsson, J., Abshirini, E., Dhanani, A. (2017). ´Quantitative comparison of cities: Distribution of street and building types based on density and centrality measures ´. Proceedings XI space syntax conference, Lisbon.

examine parameter sensitivity

Gidon Eshel
matlab code used the assess sensitivity to parameter choices.

examine parameter sensitivity

Gidon Eshel
matlab code used the assess sensitivity to parameter choices.

oneDexample.m

Gidon Eshel
demonstration of a point in Eshel and Carmel 2017

showprojections.m

Gidon Eshel
demonstrate non-normal excitation

oneDexample.m

Gidon Eshel
demonstration of a point in Eshel and Carmel 2017

showprojections.m

Gidon Eshel
demonstrate non-normal excitation

Heagy et al 2017 - EM sensitivity calculation for a parametric model including steel casing and using a primary secondary approach

Lindsey Heagy, Rowan Cockett, Seogi Kang, Gudni Rosenkjaer & Douglas W Oldenburg
Here, we use a primary-secondary approach to compute the sensitivity of an EMsurvey with respect to a parametric model of a block in a layered space.
If you run this example with :code:`reRun=False`, stored results for thesensitivity will be downloaded and plotted. Otherwise, if `reRun=True`, theexample will be re-run. Note that you will need modest computational resourcesto re-compute the sensitivity (it is a 3D EM problem!).
There are 6 plots that are produced. Figure 1 shows the...

Heagy et al 2017 - EM sensitivity calculation for a parametric model including steel casing and using a primary secondary approach

Lindsey Heagy, Rowan Cockett, Seogi Kang, Gudni Rosenkjaer & Douglas W Oldenburg
Here, we use a primary-secondary approach to compute the sensitivity of an EMsurvey with respect to a parametric model of a block in a layered space.
If you run this example with :code:`reRun=False`, stored results for thesensitivity will be downloaded and plotted. Otherwise, if `reRun=True`, theexample will be re-run. Note that you will need modest computational resourcesto re-compute the sensitivity (it is a 3D EM problem!).
There are 6 plots that are produced. Figure 1 shows the...

East Africa groundwater hydro-refugia ABM model

Mark Cuthbert
For a full description please see Methods section of:Cuthbert et al. 2017 "Modelling the role of groundwater hydro-refugia in East African hominin evolution and dispersal"Nature Communications, DOI 10.1038/NCOMMS15696

East Africa groundwater hydro-refugia ABM model

Mark Cuthbert
For a full description please see Methods section of:Cuthbert et al. 2017 "Modelling the role of groundwater hydro-refugia in East African hominin evolution and dispersal"Nature Communications, DOI 10.1038/NCOMMS15696

Matlab_code (3).txt

Matthew Sheldon & Athavan Nadarajah
Matlab Code

Matlab_code (3).txt

Matthew Sheldon & Athavan Nadarajah
Matlab Code

Matlab Codes for Calculating Heterotrophic Fluxes in Chlamydomonas

Nanette Boyle, Neelanjan Sengupta & John A. Morgan
Matlab Codes for Calculating Heterotrophic Fluxes in Chlamydomonas

Matlab Codes for Calculating Heterotrophic Fluxes in Chlamydomonas

Nanette Boyle, Neelanjan Sengupta & John A. Morgan
Matlab Codes for Calculating Heterotrophic Fluxes in Chlamydomonas

coming soon

Bernhard Spitzer
test

Python package for analysis of FOM convergence

Joshua Rehak
A python package to analyze the figure of merit convergence of Serpent Monte-Carlo simulations.

Dicty Tracking: A standalone tool for fast and easy tracking of migrating Dictyostelium cells

Christof Litschko
Dicty Tracking is a free, fast and easy-to-use standalone tool for semi-automatic tracking of migrating Dictyostelium discoideum cells from phase-contrast time-lapse image series based on MATLAB®. The tool is provided as a .zip package containing sample image series, additional Excel workbooks for further analysis as well as an detailed user guide. Dicty Tracking requires Fiji/ImageJ and the installation of MATLAB Runtime. The tool might be also suitable for other cell types creating prominent halos when...

Data and code to describe Carlia johnstonei and C. triacantha

Ana Silva
Input files for analysis with BPP, StarBEAST2 and SNAPP for species delimitation with genetic data as well code and raw data for Morphological analysis.

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