An enhanced version of SMMP—open-source software package for simulation of proteins

2006 ◽  
Vol 174 (5) ◽  
pp. 422-429 ◽  
Author(s):  
Frank Eisenmenger ◽  
Ulrich H.E. Hansmann ◽  
Shura Hayryan ◽  
Chin-Kun Hu
Keyword(s):  
Open Source ◽  
Open Source Software ◽  
Software Package ◽  
Open Source Software Package

scholarly journals Integration of enabling methods for the automated flow preparation of piperazine-2-carboxamide

2014 ◽  
Vol 10 ◽  
pp. 641-652 ◽  
Author(s):  
Richard J Ingham ◽  
Claudio Battilocchio ◽  
Joel M Hawkins ◽  
Steven V Ley
Keyword(s):  
Open Source ◽  
Open Source Software ◽  
Software Package ◽  
Flow Chemistry ◽  
Raspberry Pi ◽  
Step Flow ◽  
Simultaneous Control ◽  
Open Source Software Package

Here we describe the use of a new open-source software package and a Raspberry Pi® computer for the simultaneous control of multiple flow chemistry devices and its application to a machine-assisted, multi-step flow preparation of pyrazine-2-carboxamide – a component of Rifater®, used in the treatment of tuberculosis – and its reduced derivative piperazine-2-carboxamide.

scholarly journals An open source software package for primality testing of numbers of the form p2^n+1, with no constraints on the relative sizes of p and 2^n

2018 ◽  
Author(s):  
Tejas R. Rao
Keyword(s):  
Open Source ◽  
Open Source Software ◽  
Software Package ◽  
Primality Testing ◽  
Fermat Number ◽  
Open Source Software Package ◽  
Sierpinski Numbers ◽  
Efficient Software

We develop an efficient software package to test for the primality of p2^n+1, p prime and p>2^n. This aids in the determination of large, non-Sierpinski numbers p, for prime p, and in cryptography. It furthermore uniquely allows for the computation of the smallest n such that p2^n+1 is prime when p is large. We compute primes of this form for the first one million primes p and find four primes of the form above 1000 digits. The software may also be used to test whether p2^n+1 divides a generalized fermat number base 3.

scholarly journals Development and Evaluation of an Open-Source Software Package “CGITA” for Quantifying Tumor Heterogeneity with Molecular Images

2014 ◽  
Vol 2014 ◽  
pp. 1-9 ◽  
Author(s):  
Yu-Hua Dean Fang ◽  
Chien-Yu Lin ◽  
Meng-Jung Shih ◽  
Hung-Ming Wang ◽  
Tsung-Ying Ho ◽  
...  
Keyword(s):  
Open Source ◽  
Texture Analysis ◽  
Open Source Software ◽  
Software Package ◽  
Tumor Heterogeneity ◽  
Locally Advanced ◽  
Image Texture ◽  
Pixel Intensity ◽  
Open Source Software Package ◽  
Molecular Images

Background. The quantification of tumor heterogeneity with molecular images, by analyzing the local or global variation in the spatial arrangements of pixel intensity with texture analysis, possesses a great clinical potential for treatment planning and prognosis. To address the lack of available software for computing the tumor heterogeneity on the public domain, we develop a software package, namely, Chang-Gung Image Texture Analysis (CGITA) toolbox, and provide it to the research community as a free, open-source project.Methods. With a user-friendly graphical interface, CGITA provides users with an easy way to compute more than seventy heterogeneity indices. To test and demonstrate the usefulness of CGITA, we used a small cohort of eighteen locally advanced oral cavity (ORC) cancer patients treated with definitive radiotherapies.Results. In our case study of ORC data, we found that more than ten of the current implemented heterogeneity indices outperformed SUVmeanfor outcome prediction in the ROC analysis with a higher area under curve (AUC). Heterogeneity indices provide a better area under the curve up to 0.9 than the SUVmeanand TLG (0.6 and 0.52, resp.).Conclusions. CGITA is a free and open-source software package to quantify tumor heterogeneity from molecular images. CGITA is available for free for academic use athttp://code.google.com/p/cgita.

scholarly journals Electron Microscopy (Big and Small) Data Analysis With the Open Source Software Package HyperSpy

2017 ◽  
Vol 23 (S1) ◽  
pp. 214-215 ◽  
Author(s):  
Francisco de la Pena ◽  
Tomas Ostasevicius ◽  
Vidar Tonaas Fauske ◽  
Pierre Burdet ◽  
Petras Jokubauskas ◽  
...  
Keyword(s):  
Electron Microscopy ◽  
Data Analysis ◽  
Open Source ◽  
Open Source Software ◽  
Software Package ◽  
Small Data ◽  
Open Source Software Package

scholarly journals Tools4MSP: an open source software package to support Maritime Spatial Planning

2018 ◽  
Vol 4 ◽  
pp. e165 ◽  
Author(s):  
Stefano Menegon ◽  
Alessandro Sarretta ◽  
Daniel Depellegrin ◽  
Giulio Farella ◽  
Chiara Venier ◽  
...  
Keyword(s):  
Open Source ◽  
Open Source Software ◽  
Spatial Planning ◽  
Software Package ◽  
Integrated System ◽  
Third Party ◽  
Data Repositories ◽  
Open Source Software Package ◽  
Geospatial Datasets ◽  
Maritime Spatial Planning

This paper presents the Tools4MSP software package, a Python-based Free and Open Source Software (FOSS) for geospatial analysis in support of Maritime Spatial Planning (MSP) and marine environmental management. The suite was initially developed within the ADRIPLAN data portal, that has been recently upgraded into the Tools4MSP Geoplatform (data.tools4msp.eu), an integrated web platform that supports MSP through the application of different tools, e.g., collaborative geospatial modelling of cumulative effects assessment (CEA) and marine use conflict (MUC) analysis. The package can be used as stand-alone library or as collaborative webtool, providing user-friendly interfaces appropriate to decision-makers, regional authorities, academics and MSP stakeholders. An effective MSP-oriented integrated system of web-based software, users and services is proposed. It includes four components: the Tools4MSP Geoplatform for interoperable and collaborative sharing of geospatial datasets and for MSP-oriented analysis, the Tools4MSP package as stand-alone library for advanced geospatial and statistical analysis, the desktop applications to simplify data curation and the third party data repositories for multidisciplinary and multilevel geospatial datasets integration. The paper presents an application example of the Tools4MSP GeoNode plugin and an example of Tools4MSP stand-alone library for CEA in the Adriatic Sea. The Tools4MSP and the developed software have been released as FOSS under the GPL 3 license and are currently under further development.

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