ADaCGH2 2.12.0

Analysis of big data from aCGH experiments using parallel computing and ff objects

Released Apr 29, 2016 by Ramon Diaz-Uriarte

This package cannot yet be used with Renjin it depends on other packages which are not available: snapCGH 1.42.0, aCGH 1.50.0, tilingArray 1.50.0, waveslim 1.12, and ffbase 0.12.3


tilingArray 1.50.0 snapCGH 1.42.0 ffbase 0.12.3 aCGH 1.50.0 waveslim 1.12 GLAD 2.36.0 bit 1.1-12 ff 2.2-13 DNAcopy 1.46.0 cluster 2.0.4

Analysis and plotting of array CGH data. Allows usage of Circular Binary Segementation, wavelet-based smoothing (both as in Liu et al., and HaarSeg as in Ben-Yaacov and Eldar), HMM, BioHMM, GLAD, CGHseg. Most computations are parallelized (either via forking or with clusters, including MPI and sockets clusters) and use ff for storing data.



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