CNANorm
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Application data |
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| Created by | Stefano Berri and Arief Gusnanto |
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| Biological application domain(s) | Cancer biology, Copy number estimation, Genomics |
| Principal bioinformatics method(s) | Peak calling, Standardisation and normalisation |
| Technology | Illumina |
| Created at | University of Leeds |
| Maintained? | Yes |
| Input format(s) | Delimited Text, SAM, BAM |
| Output format(s) | Delimited Text |
| Programming language(s) | R, Perl |
| Software libraries | SAMtools |
| Licence | GPLv2 |
| Operating system(s) | Linux, Mac OS X, Windows |
Summary: A normalization method for Copy Number Aberration in cancer samples.
"Error: no local variable "counter" was set." is not a number.
Description
Performs ratio, GC content correction and normalization of data obtained using low coverage (one read every 100-10,000 bp) high throughput sequencing. It performs a "discrete" normalization looking for the ploidy of the genome. It will also provide tumour content if at least two ploidy states can be found.
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