To correct for this artefact, we applied the following formula in TRAM: Scaled Rank = Rank * Max Rank/Max Sample Rank, were 'Rank' is the rank (position in the ranking) of the value in the sample data column sorted in ascendant order, 'Max Rank' is the highest rank present in the whole sample dataset, and 'Max Sample Rank' is the highest rank assigned within each considered sample.
Table 12 shows attributes, probability of their occurrence for a classification of False (Non-Predator), probability for True (Predator), and the difference (positive values imply True) in two different columns sorted by True and False values respectively.
First, adding colored connecting lines is one way to make it easier for the audience to find the related circles in the columns sorted in descending order.
Samples are represented by rows, genomic regions by the columns sorted on genomic order.
The expression pattern of genes in V are approximated by a linear combination of the k metagenes in W. To compare the activity of the metagenes, the column sums of the coefficient values were calculated, and the columns sorted in descending order according to their column sums.
In the case of essential columns (for sorting or filtering, e.g., "species", "country", "collcite", "number", "majorarea", "minorarea"), these will be added and filled with meaningful values for missing content (e.g., "Anonymous" for missing collector information).
A subset of these 94 mRNAs are listed in Figure 5A (column 1), sorted on the mean TE4G/TEWT values (column 4).
