- This code was used to generate CNV calls for the Facebase project
- calls using three tools: VanillaICE, pennCNV, and DNACopy.
- Rather than relying on one algorithm, we seek consensus among the three for more robust results.
- assumes data have been processed by Illumina GenomeStudio and results stored in FinalReport
- PennCNV
- DNAcopy
- VanillaICE
- ArrayTV
- bedtools
git clone https://github.com/dpastling/facebase_cnv
TODO: find a small example file online TODO: also need support files
- modify the config.sh file
- TODO: more info here
This project is licensed under the MIT License - see the LICENSE.md file for details