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  2. List of RNA-Seq bioinformatics tools - Wikipedia

    en.wikipedia.org/wiki/List_of_RNA-Seq...

    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 ...

  3. DESeq2 - Wikipedia

    en.wikipedia.org/wiki/DESeq2

    DESeq2 employs statistical methods to normalize and analyze RNA-seq data, making it a valuable tool for researchers studying gene expression patterns and regulation. It is available through the Bioconductor repository. It was first presented in 2014. [1] As of September 2023, its use has been cited over 30,000 times. [2]

  4. MA plot - Wikipedia

    en.wikipedia.org/wiki/MA_plot

    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.

  5. RNA-Seq - Wikipedia

    en.wikipedia.org/wiki/RNA-Seq

    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]

  6. Kernel (statistics) - Wikipedia

    en.wikipedia.org/wiki/Kernel_(statistics)

    The first requirement ensures that the method of kernel density estimation results in a probability density function. The second requirement ensures that the average of the corresponding distribution is equal to that of the sample used. If K is a kernel, then so is the function K* defined by K*(u) = λK(λu), where λ > 0. This can be used to ...

  7. Q-function - Wikipedia

    en.wikipedia.org/wiki/Q-function

    In statistics, the Q-function is the tail distribution function of the standard normal distribution. [ 1 ] [ 2 ] In other words, Q ( x ) {\displaystyle Q(x)} is the probability that a normal (Gaussian) random variable will obtain a value larger than x {\displaystyle x} standard deviations.

  8. Israel pounds Syrian army bases, denies deeper incursion - AOL

    www.aol.com/news/syrias-rebels-form-government...

    DAMASCUS (Reuters) -Israel pounded Syrian army bases on Tuesday in strikes it says aim to keep weapons from falling into hostile hands, but denied its forces had advanced into Syria beyond a ...

  9. CITE-Seq - Wikipedia

    en.wikipedia.org/wiki/CITE-Seq

    Finally, a normalized count matrix with gene expression values is obtained. ADT data analysis [2] [7] [10] [11] (based on the developer's guidelines): CITE-seq-Count is a Python package from CITE-Seq developers that can be used to obtain raw counts. Seurat package from Satija lab further allows combining of the protein and RNA counts and ...