SAGE: String-overlap Assembly of GEnomes
SAGE2 is now available: SAGE2_source_code
SAGE is a new string-overlap graph-based de novo genome assembler. To run SAGE, first correct the input dataset using RACER, then use the command:
SAGE [inputFile(s)] [outputDir] [minOverlapLength]
- SAGE is the appropriate binary used, e.g., SAGE_Linux
- [inputFile(s)] is the list of input files with (corrected) reads
- [outputDir] contains the assembly produced
- [overlapLength] is the length of the minimum overlap between reads
SAGE assumes all reads have the same length and the paired reads are interleaved.
The assemblies for the datasets in the paper can be found below:
SAGE source code
The source code can be downloaded here.
If you use SAGE, please cite:
For any questions, please contact Lucian Ilie: firstname.lastname@example.org
© 2014 Lucian Ilie, Bahlul Haider, Michael Molnar, Roberto Solis-Oba