### 5_pseudo_time: update

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 ... ... @@ -43,8 +43,30 @@ classoption: aspectratio=169 # Continuous clustering \begin{columns} \column{0.5\textwidth} one RNA-Seq experiment constitutes a {\bf time series}, with each {\bf cell representing a distinct time point} along a continuum. \column{0.5\textwidth} one RNA-Seq experiment constitutes a {\bf time series}, with each {\bf cell representing a distinct time point} along a continuum. \begin{center} \href{http://www.nature.com/doifinder/10.1038/nbt.2859}{ \includegraphics[with=0.8\textwidth]{img/pseudo_time.png} } \end{center} \end{columns} # Path detection ## Monocle 1 \begin{center} \href{http://www.nature.com/doifinder/10.1038/nbt.2859}{ \includegraphics[with=0.8\textwidth]{img/monocle_1.png} } \end{center} # Cycle detection # Velocity ... ...
 ... ... @@ -42,6 +42,43 @@ classoption: aspectratio=169 - Multivariate Differential expression analysis 6. Differential expression analysis (Monday 11 July 2022 - 15:30) # Hypothesis testing ## Hypothesis testing \begin{itemize*} \item $H_0$: the gene pression is the same between the $2$ groups \item $H_1$: the gene pression is not the same between the $2$ groups \end{itemize*} ## Hypothesis testing \begin{itemize*} \item $H_0$: the gene pression is the same between the $2$ groups \item $H_1$: the gene pression is not the same between the $2$ groups \end{itemize*} \begin{center} \bf We reject $H_0$ with a given risk $\alpha$ and a power $\beta$ \end{center} ## Hypothesis testing \begin{itemize} \item $\beta$ probability of a Type II error, known as a {\it false negative} \item $1 - \beta$ probability of a {\it true positive}, i.e., correctly rejecting the null hypothesis. $1 - \beta$ is also known as the power of the test. \item $\alpha$ probability of a Type I error, known as a {\it false positive} \item $1 - \alpha$ probability of a {\it true negative}, i.e., correctly not rejecting the null hypothesis \end{itemize} ## Hypothesis testing \begin{center} \href{https://en.wikipedia.org/wiki/Power_of_a_test#/media/File:Statistical_test,_significance_level,_power.png}{ \includegraphics[width=0.6\textwidth]{img/alpha_beta.png} } \end{center} # Parametric versus non-parametric testing # Differential expression analysis between groups ## Differential expression analysis between $2$ groups ... ...
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