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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 ...
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.
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.
Methods: Most tools use regression or non-parametric statistics to identify differentially expressed genes, and are either based on read counts mapped to a reference genome (DESeq2, limma, edgeR) or based on read counts derived from alignment-free quantification (sleuth, [106] Cuffdiff, [107] Ballgown [108]). [109]
Origin is primarily a GUI software with a spreadsheet front end. Unlike popular spreadsheets like Excel, Origin's worksheet is column oriented. Each column has associated attributes like name, units and other user definable labels. Instead of cell formula, Origin uses column formula for calculations.
Snowflake schema used by example query. The example schema shown to the right is a snowflaked version of the star schema example provided in the star schema article. The following example query is the snowflake schema equivalent of the star schema example code which returns the total number of television units sold by brand and by country for 1997.
since it is a convolution of normalized profiles. The Lorentzian profile has no moments (other than the zeroth), and so the moment-generating function for the Cauchy distribution is not defined. It follows that the Voigt profile will not have a moment-generating function either, but the characteristic function for the Cauchy distribution is ...
Therefore, the normalized frequency unit is important when converting normalized results into physical units. Example of plotting samples of a frequency distribution in the unit "bins", which are integer values. A scale factor of 0.7812 converts a bin number into the corresponding physical unit (hertz).