Xiang


Arabidopsis embryo dataset contains gene expression levels (3625 genes
and 7 embryo samples) from Xiang et al. (2011).
This dataset has been pre-processed: capping into floor of intensity
777.6; 2-base logarithmic transformation; row/gene centering; and
keeping genes with at least 2-fold changes (in any stage) as compared
to the average over embryo stages.

datasets

A supra-hexagonal map is a giant hexagon on a 2-dimensional grid
seamlessly consisting of smaller hexagons. It is supposed to train, analyse and
visualise a high-dimensional omics input data. The supraHex is able to carry
out gene clustering/meta-clustering and sample correlation, plus intuitive
visualisations to facilitate exploratory analysis. More importantly, it allows
for overlaying additional data onto the trained map to explore relations between
input and additional data. So with supraHex, it is also possible to carry out
multilayer omics data comparisons. Newly added utilities are advanced heatmap
visualisation and tree-based analysis of sample relationships. Uniquely to
this package, users can ultrafastly understand any tabular omics data, both
scientifically and artistically, especially in a sample-specific fashion but
without loss of information on large genes (see http://www.ncbi.nlm.nih.gov/
pubmed/24309102).

Hai Fang

supraHex

A Supra-Hexagonal Map for Analysing Tabular Omics Data

Xiang function

Arabidopsis embryo dataset contains gene expression levels (3625 genes
and 7 embryo samples) from Xiang et al. (2011).
This dataset has been pre-processed: capping into floor of intensity
777.6; 2-base logarithmic transformation; row/gene centering; and
keeping genes with at least 2-fold changes (in any stage) as compared
to the average over embryo stages.

Xiang: Arabidopsis embryo gene expression dataset from Xiang et al. (2011)

Description

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