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As shown in Supplementary Table, the efficiency with eight threads is 0.55 0.74 for five datasets, each with ∼1000 sequences.
However, the SVM-RFE results are available only for five datasets from [ 8, 15, 17], namely, leukemia, colon cancer, breast cancer, lymphoma, and prostate cancer.
For three datasets, the clustering scoring method gave better ROC curves than the best energy scoring functions and for five datasets the efficiency was approximately the same.
Although all genomes were chosen for GAGE-B based on the existence of a reference genome, our analyses showed that for five datasets, the sequenced genome represented a strain that, although belonging to the same species, had an unexpected amount of divergence from the reference strain.
> -wrap-foot> speedupsal speedups of FastCodeML (single-threaded) versus CodeML and SlimCodeML for five datasets (H0 and H1, respectively) on platform Macpro (cf. supplementary material) are depicted in Figure 4; here, FastCodeML includes the following improvements: faster matrix exponentiation (Section 2.1.2) and subtrees reuse (Section 2.1.1).
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The average PSNR improvement from the bi-cubic interpolation is 7.15 dB for four datasets.
WGS were conducted separately for three datasets (n = 1276, 492, and 466, respectively; Supplementary Table 1) with the design to achieve high-depth of the mapped reads (20 35×).
Fig. 10 SPT comparisons for three datasets.
For six datasets read-across showed better prediction performance, and for two datasets better prediction performance was obtained using model predictions.
PRED Metric We observe that the LR method outperforms the RPART and NNR methods for two datasets, the RPART method outperforms the LR and NNR methods for one dataset, and the NNR method outperforms the RPART and LR methods for two datasets.
Open image in new window Figure 6 Comparison of the number of retained and discarded positions for two datasets.
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Justyna Jupowicz-Kozak
CEO of Professional Science Editing for Scientists @ prosciediting.com