Oases 0.2.09
:: DESCRIPTION
Oases designed to heuristically assemble RNA-seq reads in the absence of a reference genome, across a broad spectrum of expression values and in presence of alternative isoforms. It achieves this by using an array of hash lengths, a dynamic filtering of noise, a robust resolution of alternative splicing events, and the efficient merging of multiple assemblies. It was tested on human and mouse RNA-seq data and is shown to improve significantly on the transABySS and Trinity de novo transcriptome assemblers.
::DEVELOPER
:: SCREENSHOTS
N/A
:: REQUIREMENTS
- Linux/MacOsX
- Velvet
:: DOWNLOAD
:: MORE INFORMATION
Citation
Marcel H. Schulz, Daniel R. Zerbino, Martin Vingron and Ewan Birney
Oases: Robust de novo RNA-seq assembly across the dynamic range of expression levels
Bioinformatics (2012)doi: 10.1093/bioinformatics/bts094