This is the Windows app named LoopMatcher to run in Windows online over Linux online whose latest release can be downloaded as loopMatcher.1.3.2.rar. It can be run online in the free hosting provider OnWorks for workstations.
Download and run online this app named LoopMatcher to run in Windows online over Linux online 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
Ad
LoopMatcher to run in Windows online over Linux online
DESCRIPTION
Multi-threaded application that searches for hairpin structures in cDNA / mRNA sequences (FASTA or GenBank) with specific consensus sequences in the loop. It implements RNAfold to predict the structure of the sequence, and UShuffle to generate random sequences with conservation of the k-nucleotide frequency. Also, it can download sequences in GenBank format directly from NCBI using the NCBI accession ID.Requirements
JAVA Runtime 8. It's highly recommended to have a multicore processor to process large sequences.
* Currently, this version only runs in Windows x64.
Features
- Support to GenBank, FASTA and Vienna format files
- Process one or multiple files
- Get and process sequences from NCBI
- Seek for multiple patterns using the FASTA IUPAC code for nucleotides
- Generate shuffled versions with a k-let parameter (Ushuffle algorithm)
- Results in a CSV format table
- Two modes of folding, localized or global (entire sequence)
- Folding with RNAFold (minimum free energy structure)
Audience
Science/Research, Education
User interface
Java Swing
Programming Language
Java
Database Environment
Flat-file
This is an application that can also be fetched from https://sourceforge.net/projects/find-a-loop/. It has been hosted in OnWorks in order to be run online in an easiest way from one of our free Operative Systems.
