Recommendation to use exact P-values in biomarker discovery research in place of approximate P-values
نویسندگان
چکیده
منابع مشابه
Computing exact P-values for DNA motifs
MOTIVATION Many heuristic algorithms have been designed to approximate P-values of DNA motifs described by position weight matrices, for evaluating their statistical significance. They often significantly deviate from the true P-value by orders of magnitude. Exact P-value computation is needed for ranking the motifs. Furthermore, surprisingly, the complexity of the problem is unknown. RESULTS...
متن کاملPermutation P-values should never be zero: calculating exact P-values when permutations are randomly drawn.
Permutation tests are amongst the most commonly used statistical tools in modern genomic research, a process by which p-values are attached to a test statistic by randomly permuting the sample or gene labels. Yet permutation p-values published in the genomic literature are often computed incorrectly, understated by about 1/m, where m is the number of permutations. The same is often true in the ...
متن کاملExact P - values in Incomplete Multi - way Tables ∗
I develop a new Markov chain algorithm for sampling from sets of multi-way contingency tables defined by an arbitrary set of fixed marginals and by lower and upper bounds constraints on cell counts. My procedure is called the Bounds Sampling Algorithm (BSA) and it relies on the existence of a method to calculate lower and upper bounds for cell entries. BSA accommodates any pattern of structural...
متن کاملFlaw or discovery? Calculating exact p-values for genome-wide association studies in inbred populations
Motivation: Genome-wide association studies have been conducted in inbred populations where the sample size is small. The ordinary association p-values and multiple testing correction therefore become questionable, as the detected genetic effect may or may not be due to chance, depending on the minor allele frequency distribution across the genome. Instead of permutation testing, marker-specifi...
متن کاملIn defense of P values.
Statistical hypothesis testing has been widely criticized by ecologists in recent years. I review some of the more persistent criticisms of P values and argue that most stem from misunderstandings or incorrect interpretations, rather than from intrinsic shortcomings of the P value. I show that P values are intimately linked to confidence intervals and to differences in Akaike's information crit...
متن کاملذخیره در منابع من
با ذخیره ی این منبع در منابع من، دسترسی به آن را برای استفاده های بعدی آسان تر کنید
ژورنال
عنوان ژورنال: Cancer Epidemiology
سال: 2018
ISSN: 1877-7821
DOI: 10.1016/j.canep.2018.07.014