add clustering and dim red slides

M1_biosciences_clustering/beamercolorthemeSimplePlus.sty

+% define color
+\definecolor{InvisibleRed}{rgb}{0.97, 0.92, 0.92}
+\definecolor{InvisibleGreen}{rgb}{0.92, 0.97, 0.92}
+\definecolor{InvisibleBlue}{rgb}{0.92, 0.92, 0.97}
+
+\definecolor{MediumRed}{rgb}{0.925, 0.345, 0.345}
+\definecolor{MediumGreen}{rgb}{0.37, 0.7, 0.66}
+\definecolor{MediumBlue}{rgb}{0.015, 0.315, 0.45}
+
+\definecolor{DarkBlue}{rgb}{0.05, 0.15, 0.35} 
+
+% set color
+\usecolortheme[named=DarkBlue]{structure}
+
+\setbeamercolor{titlelike}{parent=structure}
+\setbeamercolor{block title}{bg=MediumBlue}
+\setbeamercolor{block body}{bg=InvisibleBlue}
+\setbeamercolor{block title example}{bg=MediumGreen}
+\setbeamercolor{block body example}{bg=InvisibleGreen}
+\setbeamercolor{block title alerted}{bg=MediumRed}
+\setbeamercolor{block body alerted}{bg=InvisibleRed}
\ No newline at end of file

M1_biosciences_clustering/beamerfontthemeSimplePlus.sty

+\mode<presentation>
+
+%%%%%%%%%%%% fonts
+
+\setbeamerfont{structure}{family=\sffamily,series=\mdseries}
+
+\setbeamerfont{title}{size=\huge,series=\bfseries,parent=structure}
+\setbeamerfont{subtitle}{size=\normalsize,parent=title}
+
+\setbeamerfont{date}{size=\scriptsize,series=\mdseries,parent=structure}
+\setbeamerfont{author}{size=\large,series=\mdseries,parent=structure}
+\setbeamerfont{institute}{size=\scriptsize,series=\mdseries,parent=structure}
+
+\setbeamerfont{section in toc}{size=\Large,series=\bfseries,parent=structure}
+\setbeamerfont{section in head/foot}{size=\tiny,parent=structure}
+\setbeamerfont{subsection in toc}{size=\small,series=\mdseries,parent={section in toc}}
+
+\setbeamerfont{frametitle}{size=\LARGE,series=\bfseries,parent=structure}
+\setbeamerfont{framesubtitle}{parent=frametitle,size=\Large}
+
+\setbeamerfont{caption}{size=\footnotesize}
+\setbeamerfont{item}{parent=structure,series=\mdseries}
+\setbeamerfont{block title}{size=\large,series=\mdseries,parent={structure,block body}}
+
+\mode
+<all>

M1_biosciences_clustering/beamerinnerthemeSimplePlus.sty

+\pgfdeclareverticalshading[lower.bg,upper.bg]{bmb@transition}{200cm}{%
+  color(0pt)=(lower.bg); color(2pt)=(lower.bg); color(4pt)=(lower.bg)}
+
+\setbeamersize{text margin left=2em,text margin right=2em} 
+
+% table of contents (overview)
+\setbeamertemplate{section in toc}[sections numbered]
+\setbeamertemplate{subsection in toc}{\leavevmode\leftskip=3.2em\rlap{\hskip-2em\inserttocsectionnumber.\inserttocsubsectionnumber}\inserttocsubsection\par}
+
+\setbeamertemplate{footline}[page number]
+\setbeamertemplate{navigation symbols}{}
+\setbeamertemplate{blocks}[rounded][shadow=false]
+\setbeamertemplate{enumerate items}[default]
+
+\setbeamertemplate{frametitle}{\vspace*{0.5em}\bfseries\insertframetitle\par\vskip-6pt\hrulefill\vspace{-0.1em}}
+
+\setbeamertemplate{title page}{
+    \vspace{7em}
+    \begingroup
+        \centering
+        % ------------------------
+        \begin{beamercolorbox}[sep=8pt,center]{title}
+        \usebeamerfont{title}\inserttitle\par%
+        \ifx\insertsubtitle\@empty%
+        \else%
+            \vskip0.25em%
+            {\usebeamerfont{subtitle}\usebeamercolor[fg]{subtitle}\insertsubtitle\par}%
+        \fi%     
+        \end{beamercolorbox}%
+        \vskip0.5em\par
+        % ------------------------
+        \begin{beamercolorbox}[sep=8pt,center]{author}
+        \usebeamerfont{author}\insertauthor
+        \end{beamercolorbox}
+        \vskip-1em
+        % ------------------------
+        \begin{beamercolorbox}[sep=8pt,center]{institute}
+        \usebeamerfont{institute}\insertinstitute
+        \end{beamercolorbox}
+        % ------------------------
+        \begin{beamercolorbox}[sep=8pt,center]{date}
+        \usebeamerfont{date}\insertdate
+        \end{beamercolorbox}\vskip0.5em
+        % ------------------------
+        {\usebeamercolor[fg]{titlegraphic}\inserttitlegraphic\par}
+    \endgroup
+    \vfill
+}
\ No newline at end of file

M1_biosciences_clustering/beamerthemeAmsterdam.sty

+\DeclareOptionBeamer{compress}{\beamer@compresstrue}
+\ProcessOptionsBeamer
+
+\mode<presentation>
+
+\useoutertheme[footline=authortitle]{miniframes}
+\useinnertheme{circles}
+\usecolortheme{whale}
+\usecolortheme{orchid}
+
+\definecolor{beamer@blendedblue}{rgb}{0.137,0.466,0.741}
+
+\setbeamercolor{structure}{fg=beamer@blendedblue}
+\setbeamercolor{titlelike}{parent=structure}
+\setbeamercolor{frametitle}{fg=black}
+\setbeamercolor{title}{fg=black}
+\setbeamercolor{item}{fg=black}
+
+\mode
+<all>

M1_biosciences_clustering/beamerthemeSimplePlus.sty

+\mode<presentation>
+
+% Settings
+\usetheme{Madrid}
+\useinnertheme{circles}
+
+\usefonttheme{SimplePlus}
+\usecolortheme{SimplePlus}
+\useinnertheme{SimplePlus}
+
+\mode<all>
\ No newline at end of file

M1_biosciences_clustering/biblio.bib

+% 25086649 
+@Article{pmid25086649,
+   Author="Pollen, A. A.  and Nowakowski, T. J.  and Shuga, J.  and Wang, X.  and Leyrat, A. A.  and Lui, J. H.  and Li, N.  and Szpankowski, L.  and Fowler, B.  and Chen, P.  and Ramalingam, N.  and Sun, G.  and Thu, M.  and Norris, M.  and Lebofsky, R.  and Toppani, D.  and Kemp, D. W.  and Wong, M.  and Clerkson, B.  and Jones, B. N.  and Wu, S.  and Knutsson, L.  and Alvarado, B.  and Wang, J.  and Weaver, L. S.  and May, A. P.  and Jones, R. C.  and Unger, M. A.  and Kriegstein, A. R.  and West, J. A. ",
+   Title="{{L}ow-coverage single-cell m{R}{N}{A} sequencing reveals cellular heterogeneity and activated signaling pathways in developing cerebral cortex}",
+   Journal="Nat Biotechnol",
+   Year="2014",
+   Volume="32",
+   Number="10",
+   Pages="1053--1058",
+   Month="Oct"
+}
+