102 lines
4.5 KiB
TeX
102 lines
4.5 KiB
TeX
\documentclass[a4paper, 10pt]{article}
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\usepackage[utf8]{inputenc}
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\usepackage{graphicx}
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\usepackage{subcaption}
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\usepackage[htt]{hyphenat} % allow hyphen inside texttt to avoid overfull hbox warnings
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\usepackage[english, french]{babel}
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\usepackage[margin=0.5in]{geometry} % default margins are too big for my taste: too much wasted space http://kb.mit.edu/confluence/pages/viewpage.action?pageId=3907057
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\usepackage{amsmath} % provides underset
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\hyphenation{tu-yau}
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\title{lipase}
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\author{Guillaume Raffy \and Véronique Vié }
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\begin{document}
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\selectlanguage{english}
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\maketitle
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\section{catalog images}
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image prefix :
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\selectlanguage{french}
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\begin{description}
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\item[AF]
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\item[blé] coupes de blé
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\item[CA] coupe d'amande
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\item[FE] feuille d'épinard
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\item[GGH] globule gras humain
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\item[CRF] chloroplastes de feuille d'épinard
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\item[OL] oléosome
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\item[DARK] dark
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\item[white]
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\end{description}
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\begin{description}
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\item[cin1] cinétique 1
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\begin{description}
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\item[\texttt{phiG\_40x\_1}] cinétique avant et après injection enzyme gastrique
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\item[\texttt{phiG\_40x\_Zstack20um\_1}] stack
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\end{description}
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\begin{tabular}{l|r|p{0.4\textwidth}}
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file name & time & action \\
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\hline
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\texttt{phiG\_40x\_1} & 0 mn & on commence à enregistrer et on attend 10mn (pour le bleaching)\\
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& 10 mn & debut injection phase gastrique (poussée) \\
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& 13 mn & la phase gastrique (le petit tuyau contient $20 \mu l$) arrive dans la cellule d'un coup (1 nanol) \\
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& 15 mn & on arrête l'injection \\
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\cline{1-1} \texttt{phiG\_40x\_Zstack20um\_1} & 50 mn & on fait un stack\\
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\cline{1-1} \texttt{phiG\_I\_40x\_1} & 51 mn & début d'injection phase intestinale (poussée)\\
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& x mn & on arrête l'injection \\
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\cline{1-1} \texttt{phiG\_I\_40x\_Zstack20um\_1} & 90 mn & on fait un stack
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\end{tabular}
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\item[cin2] autre échantillon similaire à cin1
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\item[cond5678] condition non réalistes
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\end{description}
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\selectlanguage{english}
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\section{computing background image for trap sequences}
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Trap sequences show traps at fixed positions with particles that move over time, as shown in figure \ref{fig:trap_sequence1}. In order to detect the particles, we can subtract from each image a background image, which is an image of the scene without any particle.
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If we suppose that particles are moving fast enough, we can estimate this background image $B$, as :
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\begin{equation}
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B(x,y) = \underset{t\in {1 \ldots T_{max}}}{\mathrm{median}} \{I(x,y,t)\}
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\end{equation}
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where $I(x,y,t)$ is the value of the input sequence at time $t$ and on pixel position $(x,y)$ and $T_{max}$ is the number of frames in the sequence.
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\begin{figure}
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\centering
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\begin{subfigure}[b]{0.3\textwidth}
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\includegraphics[width=1.0\textwidth]{graphics/res_soleil2018_GGH_GGH_2018_cin2_phiG_I_327_vis_-40_1_Pos0_img_000000000_DM300_nofilter_vis_000.png}
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%\includegraphics[width=\textwidth]{1.png}
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\caption{Frame 0}
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%\label{fig:1}
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\end{subfigure}
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~
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\begin{subfigure}[b]{0.3\textwidth}
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\includegraphics[width=1.0\textwidth]{graphics/res_soleil2018_GGH_GGH_2018_cin2_phiG_I_327_vis_-40_1_Pos0_img_000000019_DM300_nofilter_vis_000.png}
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%\includegraphics[width=\textwidth]{1.png}
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\caption{Frame 19}
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%\label{fig:1}
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\end{subfigure}
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~
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\begin{subfigure}[b]{0.3\textwidth}
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\includegraphics[width=1.0\textwidth]{graphics/res_soleil2018_GGH_GGH_2018_cin2_phiG_I_327_vis_-40_1_Pos0_img_000000039_DM300_nofilter_vis_000.png}
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%\includegraphics[width=\textwidth]{1.png}
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\caption{Frame 39}
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%\label{fig:1}
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\end{subfigure}
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\caption{Example of trap sequence (\texttt{res\_soleil2018/GGH/GGH\_2018\_cin2\_phiG\_I\_327\_vis\_-40\_1/Pos0})}
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\label{fig:trap_sequence1}
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\end{figure}
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\end{document} |