CNVera

CNVera - tool for contig copy number estimation based on SGA source code

CNVera could be compiled with GCC 8.2.

Dependencies

CNVera has no external dependencies, although to test CNVera against Magnolia you should export paths to blastn, makeblastdb, art_illumina, quake, sga and sga/src/bin, KAligner and DistanceEst.

For now CNVera could be tested.

Building and running examples

1. To build CNVera and supportive script SVSim, type:

    make
   

2. To test Magnolia vs CNVera performance on E.coli dataset. use:

    ./release_script.sh
   

Full manual will be added further

Authors

• Dmitrii Meleshko (St. Petersburg University of the Russian Academy of Sciences, Centre for Algorithmic Biotechnologies (SPbSU))
• Vera Bushmanova (St. Petersburg State University)
• Son Pham (UCSD)

Contacts

Please report any bugs or feedback to [email protected].