This is the Linux app named Transcriptome assembly ORA whose latest release can be downloaded as saccharomyces_cerevisiae_3Mreads_ordered.sam.gz. It can be run online in the free hosting provider OnWorks for workstations.
Download and run online this app named Transcriptome assembly ORA 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 the OnWorks Linux online or Windows online emulator or MACOS online emulator from this website.
- 5. From the OnWorks Linux 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, install it and run it.
Transcriptome assembly ORA
Ad
DESCRIPTION
Sofware for reference-based transcriptome reconstruction. It performs reconstruction starting from short reads obtained from RNA-seq. It is best suited to manage the transcriptomes of lower eukaryotes with a low number of introns per gene and it can be used also for procariotes.
It needs a SAM file with the reads aligned on the reference genome and (optional) a gff file with the position of genes on the reference genome.
It provides in output the positions of the transcripts identified, the transcripts names based on the genes present on the gff file anf the size of UTR regions.
Audience
Science/Research
User interface
Command-line
Programming Language
Perl
Categories
This is an application that can also be fetched from https://sourceforge.net/projects/transcriptomeassemblyora/. It has been hosted in OnWorks in order to be run online in an easiest way from one of our free Operative Systems.
