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DESeq2 is a software package in the field of bioinformatics and computational biology for the statistical programming language R. It is primarily employed for the analysis of high-throughput RNA sequencing (RNA-seq) data to identify differentially expressed genes between different experimental conditions.
Using DESeq2 as a framework, DEvis provides a wide variety of tools for data manipulation, visualization, and project management. DEXSeq is Bioconductor package that finds differential differential exon usage based on RNA-Seq exon counts between samples. DEXSeq employs negative binomial distribution, provides options to visualization and ...
Within computational biology, an MA plot is an application of a Bland–Altman plot for visual representation of genomic data. The plot visualizes the differences between measurements taken in two samples, by transforming the data onto M (log ratio) and A (mean average) scales, then plotting these values.
In statistics, especially in Bayesian statistics, the kernel of a probability density function (pdf) or probability mass function (pmf) is the form of the pdf or pmf in which any factors that are not functions of any of the variables in the domain are omitted. [1] Note that such factors may well be functions of the parameters of the
They are useful in the field of natural language processing and computational text analysis. [ 2 ] While the value of the cells is commonly the raw count of a given term, there are various schemes for weighting the raw counts such as row normalizing (i.e. relative frequency/proportions) and tf-idf .
In another usage in statistics, normalization refers to the creation of shifted and scaled versions of statistics, where the intention is that these normalized values allow the comparison of corresponding normalized values for different datasets in a way that eliminates the effects of certain gross influences, as in an anomaly time series. Some ...
This is an attempt to model or fit an equation line or curve to the data, such that Y is a function of X. [74] [75] Necessary condition analysis (NCA) may be used when the analyst is trying to determine the extent to which independent variable X allows variable Y (e.g., "To what extent is a certain unemployment rate (X) necessary for a certain ...
Normal probability plots are made of raw data, residuals from model fits, and estimated parameters. A normal probability plot. In a normal probability plot (also called a "normal plot"), the sorted data are plotted vs. values selected to make the resulting image look close to a straight line if the data are approximately normally distributed.