The phrase 'raw method' is a correct and usable part of a sentence in written English.
It is typically used to denote a method of doing something that is simple or straightforward. For example, "I used the raw method to calculate the figures quickly."
Normalizing to AVE-INPUT obtained higher percentage of exonic peaks and GGAG motif occurrence in the highly ranked peaks than the "Raw" method.
Genes with high variability within samples were selected by pair-wise comparison analyses performed by adjusting the type-I error for multiple tests (Step-down permutation (SDP) [ 10], and False Discovery Rate (FDR) [ 11]), and with no type-I error adjustment (Raw method).
Genes with high variability within samples were selected, for screening purposes, by pair-wise comparison analyses, controlling the multiple tests by the False Discovery Rate (FDR) approach [ 24] equivalent to a q-values calculations with λ = 0 [ 25], and their PPV (Predictive Positive Value) defined as 1-FDR, and with no type-I error adjustment (Raw method) for classic p-values calculations.
a RDM = raw data method; b DFM = duplicate-free method; c CFM = contaminant-free method.
Of the local methods, the raw count of shared metabolites performs worst; better are the improved methods that account for enzyme degree; and best of all is the new method that accounts for metabolite degree as well.
The AUC0.1 for the raw NetMHCIIpan method was found to be 0.293.
Also, this increase in performance between the model and the raw NetMHCIIpan method is statistically significant (p<6.3·10−4).
Raw data method (RDM): Data without further correction, including all positive blood culture results.
Using the raw likelihood method as implemented in Mx, the different models were compared using the log-likelihood ratio test.
We used parallel analysis [ 60] to identify the number of factors to include in the factorial solution, through replacing the raw data method [ 61] by optimal implementation based on minimum rank factor analysis [ 62], generating 500 random correlation matrices.
Meanwhile, as this simple raw prediction method was based only on individual level copy number state data, false positive noises in each individual might also increase the total number of predicted CNVs when sample size increased.
