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gaia (version 2.16.0)

GAIA: An R package for genomic analysis of significant chromosomal aberrations.

Description

This package allows to assess the statistical significance of chromosomal aberrations.

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Version

Version

2.16.0

License

GPL-2

Maintainer

S Morganella

Last Published

February 15th, 2017

Functions in gaia (2.16.0)

crc

Real aCGH Dataset of Colorectal Cancer (CRC)
generate_approx_null_hypothesis

This function computes the probability distribution of the null hypothesis by an approximation.
synthMarkers_Matrix

Example of marker descriptor data matrix
qvalue

The procedure to compute the q-value.
peel_off

The iterative peel-off procedure to extract the independent peak regions.
load_cnv

This function create the object containing all needed informations about the aberrant regions.
generate_null_hypothesis

This function computes the probability distribution of the null hypothesis.
write_significant_regions

This function writes into a tab delimited file the significant aberrant regions.
gaia

GAIA: An R package for genomic analysis of significant chromosomal aberrations.
load_markers

This function create the marker descriptor object containing all needed marker informations.
synthCNV_Matrix

Example of aberration descriptor data matrix
runGAIA

Run GAIA algorithm.
search_peaks_in_regions

This function extracts the primary peak within a well-specified region.
crc_markers

Markers Descriptors for Real aCGH Dataset of Colorectal Cancer (CRC)