This is the Windows app named Gen3D whose latest release can be downloaded as gen3d.cpp. It can be run online in the free hosting provider OnWorks for workstations.
Download and run online this app named Gen3D with OnWorks for free.
Follow these instructions in order to run this app:
- 1. Downloaded this application in your PC.
- 2. Enter in our file manager https://www.onworks.net/myfiles.php?username=XXXXX with the username that you want.
- 3. Upload this application in such filemanager.
- 4. Start any OS OnWorks online emulator from this website, but better Windows online emulator.
- 5. From the OnWorks Windows OS you have just started, goto our file manager https://www.onworks.net/myfiles.php?username=XXXXX with the username that you want.
- 6. Download the application and install it.
- 7. Download Wine from your Linux distributions software repositories. Once installed, you can then double-click the app to run them with Wine. You can also try PlayOnLinux, a fancy interface over Wine that will help you install popular Windows programs and games.
Wine is a way to run Windows software on Linux, but with no Windows required. Wine is an open-source Windows compatibility layer that can run Windows programs directly on any Linux desktop. Essentially, Wine is trying to re-implement enough of Windows from scratch so that it can run all those Windows applications without actually needing Windows.
SCREENSHOTS:
Gen3D
DESCRIPTION:
Gen3D is an application designed to determine three-dimensional genome and chromosome models. It uses chromosomal contact data to construct three-dimensional conformations. This method can generate three-dimensional chromosomal models satisfying a large portion of chromosomal contacts.
The software is developed in Prof. Jianlin Cheng's Bioinformatics, Data Mining and Machine Learning Laboratory in the Computer Science Department at the University of Missouri - Columbia, USA. The project is supported by the National Science Foundation (grant no. DBI1149224).
If you use Gen3D in your research, please cite:
Nowotny, Jackson, Sharif Ahmed, Lingfei Xu, Oluwatosin Oluwadare, Hannah Chen, Noelan Hensley, Tuan Trieu, Renzhi Cao, and Jianlin Cheng. "Iterative reconstruction of three-dimensional models of human chromosomes from chromosomal contact data." BMC bioinformatics 16, no. 1 (2015): 338.
Features
- Use chromosomal contact data acquired using the Hi-C technique
- Construct 3D structural genome and chromosome models from chromosomal contact data
- Initialize the coordinates using probabilistic approach
- Novel method to represent satisfied contacts in heat map matrix
- Scoring schemes to figure out long range and short range contacts
- Compared with other existing method and also validated with genome features
Audience
Science/Research, Engineering
Programming Language
C++
Categories
This is an application that can also be fetched from https://sourceforge.net/projects/gen3d/. It has been hosted in OnWorks in order to be run online in an easiest way from one of our free Operative Systems.