crc |
Real aCGH Dataset of Colorectal Cancer (CRC) |
crc_markers |
Markers Descriptors for Real aCGH Dataset of Colorectal Cancer (CRC) |
gaia |
GAIA: An R package for genomic analysis of significant chromosomal aberrations. |
generate_approx_null_hypothesis |
This function computes the probability distribution of the null hypothesis by an approximation. |
generate_null_hypothesis |
This function computes the probability distribution of the null hypothesis. |
load_cnv |
This function create the object containing all needed informations about the aberrant regions. |
load_markers |
This function create the marker descriptor object containing all needed marker informations. |
peel_off |
The iterative peel-off procedure to extract the independent peak regions. |
qvalue |
The procedure to compute the q-value. |
runGAIA |
Run GAIA algorithm. |
search_peaks_in_regions |
This function extracts the primary peak within a well-specified region. |
synthCNV_Matrix |
Example of aberration descriptor data matrix |
synthMarkers_Matrix |
Example of marker descriptor data matrix |
write_significant_regions |
This function writes into a tab delimited file the significant aberrant regions. |