From ceafdf3fcf9f71d3908343c554c668d1b543cb92 Mon Sep 17 00:00:00 2001
From: Jan Grewe <jan.grewe@g-node.org>
Date: Sat, 1 Nov 2014 17:53:10 +0100
Subject: [PATCH] asignment text for adaptation project

---
 projects/project_adaptation_fit/Makefile      | 10 +++
 .../project_adaptation_fit/adaptation_fit.tex | 70 +++++++++++++++++++
 2 files changed, 80 insertions(+)
 create mode 100644 projects/project_adaptation_fit/Makefile
 create mode 100755 projects/project_adaptation_fit/adaptation_fit.tex

diff --git a/projects/project_adaptation_fit/Makefile b/projects/project_adaptation_fit/Makefile
new file mode 100644
index 0000000..dad25ce
--- /dev/null
+++ b/projects/project_adaptation_fit/Makefile
@@ -0,0 +1,10 @@
+latex:
+	pdflatex *.tex > /dev/null
+	pdflatex *.tex > /dev/null
+
+clean:
+	rm -rf *.log *.aux *.zip *.out auto
+	rm -f `basename *.tex .tex`.pdf
+
+zip: latex
+	zip `basename *.tex .tex`.zip *.pdf *.dat *.mat
diff --git a/projects/project_adaptation_fit/adaptation_fit.tex b/projects/project_adaptation_fit/adaptation_fit.tex
new file mode 100755
index 0000000..7b97402
--- /dev/null
+++ b/projects/project_adaptation_fit/adaptation_fit.tex
@@ -0,0 +1,70 @@
+\documentclass[addpoints,11pt]{exam}
+\usepackage{url}
+\usepackage{color}
+\usepackage{hyperref}
+
+\pagestyle{headandfoot}
+\runningheadrule
+\firstpageheadrule
+\firstpageheader{Scientific Computing}{Project Assignment}{11/05/2014
+  -- 11/06/2014}
+%\runningheader{Homework 01}{Page \thepage\ of \numpages}{23. October 2014}
+\firstpagefooter{}{}{}
+\runningfooter{}{}{}
+\pointsinmargin
+\bracketedpoints
+
+%\printanswers
+%\shadedsolutions
+
+
+\begin{document}
+%%%%%%%%%%%%%%%%%%%%% Submission instructions %%%%%%%%%%%%%%%%%%%%%%%%%
+\sffamily
+% \begin{flushright}
+% \gradetable[h][questions]
+% \end{flushright}
+
+\begin{center}
+  \input{../disclaimer.tex}
+\end{center}
+
+%%%%%%%%%%%%%% Questions %%%%%%%%%%%%%%%%%%%%%%%%%
+\section*{Estimating the time-constant of adaptation.}
+Stimulating a neuron with a constant stimulus for an extended time
+often leads to a strong initial response that relaxes over time. This
+process is called adaptation and is ubiquitous. Your task here is to
+estimate the time-constant of the firing-rate adaptation in P-unit
+electroreceptors of the weakly electric fish \textit{Apteronotus
+  leptorhynchus}.
+
+\begin{questions}
+  \question In the accompanying datasets you find the
+  \textit{spike\_times} of an P-unit electrorecptor to a stimulus of a
+  certain intensity, i.e. the \textit{contrast}. The contrast is also
+  part of the file name itself.
+  \begin{parts}
+    \part Estimate for each stimulus intensity the  
+    PSTH and plot it. You will see that there are three parts.  (i)
+    The first 200 ms is the baseline (no stimulus) activity. (ii)
+    During the next 1000 ms the stimulus was switched on. (iii) After
+    stimulus offset the neuronal activity was recorded for further 825
+    ms.
+    \part Estimate the adaptation time-constant of the adaptation for 
+    both the stimulus on- and offset. To do this fit an exponential
+    function to the data. For the decay use:
+    \begin{equation}
+       f_{A,\tau,y_0}(t) = y_0 + A \cdot e^{-\frac{t}{\tau}},
+    \end{equation}
+    where $y_0$ the offset, $A$ the amplitude, $t$ the time, $\tau$
+    the time-constant.
+    For the increasing phases use an exponential of the form:
+    \begin{equation}
+       f_{A,\tau, y_0}(t) = y_0 + A \cdot \left(1 - e^{-\frac{t}{\tau}}\right ),
+    \end{equation}
+    \part Plot the decays into the data.
+    \part Plot the estimated time-constants as a function of stimulus intensity.
+  \end{parts}
+\end{questions}
+
+\end{document}