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Commit a54ef55b authored by Simon Labarthe's avatar Simon Labarthe
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typo corrections

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...@@ -29,15 +29,15 @@ bibliography: paper.bib ...@@ -29,15 +29,15 @@ bibliography: paper.bib
# Summary # Summary
Insect pests are a major threat to agricultural systems [@oerkeCropLossesPests2006], leading to intensive use of pesticides for crop protection with unsustainable drawbacks on environment, biodiversity and human health. Most insects produce pheromones for conspecific communication, making pheromone sensors an effective tool for early specific detection of pests, in order to reduce pesticide use within the context of precision agriculture [@gebbersPrecisionAgricultureFood2010]. Insect pests are a major threat to agricultural systems [@oerkeCropLossesPests2006], leading to intensive use of pesticides for crop protection with unsustainable drawbacks on the environment, biodiversity, and human health. Most insects produce pheromones for conspecific communication, making pheromone sensors an effective tool for early specific detection of pests, in order to reduce pesticide use within the context of precision agriculture [@gebbersPrecisionAgricultureFood2010].
`Pherosensor-toolbox` is a Python package containing numerical tools for pheromone sensor data assimilation to infer the position of emitting pest insects. It contains specific tools to model pheromone propagation and solve the corresponding inverse problem to determine emitters' position taking into account the environmental context (wind, landscape, vegetation...). A specific focus is put on the integration of biological knowledge of pest behavior during inference. `Pherosensor-toolbox` is a Python package containing numerical tools for pheromone sensor data assimilation to infer the position of emitting pest insects. It contains specific tools to model pheromone propagation and solve the corresponding inverse problem to determine emitters' position taking into account the environmental context (wind, landscape, vegetation...). A specific focus is put on the integration of biological knowledge of pest behavior during inference.
# Statement of need # Statement of need
In the field of data assimilation for PDE and dynamic systems, existing packages provide tools to easily interface dynamic systems, observation models and a collection of data assimilation algorithms, such as DAPPER [@raanesDAPPERDataAssimilation2024], OpenDA [@ridlerDataAssimilationFramework2014], or PDAF [@nergerPDAFPARALLELDATA2005]. In the field of data assimilation for PDE and dynamic systems, existing packages provide tools to easily interface dynamic systems, observation models, and a collection of data assimilation algorithms, such as DAPPER [@raanesDAPPERDataAssimilation2024], OpenDA [@ridlerDataAssimilationFramework2014], or PDAF [@nergerPDAFPARALLELDATA2005].
Unlike these generic packages, `Pherosensor-toolbox` is a context-specific application-oriented package specifically designed to solve the inverse problem of inferring the source term (i.e. pheromone emitters position and emission rates) within a Chemical-Transport Model (CTM) modeling pheromone propagation in an agricultural landscape. An additional feature is the possibility of informing the data assimilation with insect behavior, such as population dynamics modeled by partial differential equations (PDEs), to get Biology-Informed Data-Assimilation (BI-DA). BI-DA aims to counter-balance data scarcity with prior biological knowledge. An other upcoming feature is optimal sensor placement tools to find the most informative sensor placement for assimilating the sensor data and inferring the source term of the CTM. The target audience is then academic researchers interested in epidemiosurveillance for crops. Unlike these generic packages, `Pherosensor-toolbox` is a context-specific application-oriented package specifically designed to solve the inverse problem of inferring the source term (i.e. pheromone emitters position and emission rates) within a Chemical-Transport Model (CTM) modeling pheromone propagation in an agricultural landscape. An additional feature is the possibility of informing the data assimilation with insect behavior, such as population dynamics modeled by partial differential equations (PDEs), to get Biology-Informed Data-Assimilation (BI-DA). BI-DA aims to counter-balance data scarcity with prior biological knowledge. Another upcoming feature is optimal sensor placement tools to find the most informative sensor placement for assimilating the sensor data and inferring the source term of the CTM. The target audience is then academic researchers interested in epidemiosurveillance for crops.
# Outlook # Outlook
...@@ -49,7 +49,7 @@ Unlike these generic packages, `Pherosensor-toolbox` is a context-specific appli ...@@ -49,7 +49,7 @@ Unlike these generic packages, `Pherosensor-toolbox` is a context-specific appli
\end{equation} \end{equation}
where $c(t,x,y)$ is the local pheromone concentration, $\mathbf{K}$ is a diffusion coefficient, $\vec{u}$ is a wind field, $\tau_{loss}$ represents vertical loss of pheromone (including vertical transport and vegetation-specific deposition), and $s$ is the quantity of pheromone emitted. Note that $\mathbf{K}$, $\vec{u}$ and $\tau_{loss}$ are known parameters, whereas $s(t,x,y)$ is the source term to estimate. The latter is related to pest density $p(x,y)$ by the relation $s = q(t) p(x,y)$ where $q$ is a time pheromone emission per insect. where $c(t,x,y)$ is the local pheromone concentration, $\mathbf{K}$ is a diffusion coefficient, $\vec{u}$ is a wind field, $\tau_{loss}$ represents vertical loss of pheromone (including vertical transport and vegetation-specific deposition), and $s$ is the quantity of pheromone emitted. Note that $\mathbf{K}$, $\vec{u}$ and $\tau_{loss}$ are known parameters, whereas $s(t,x,y)$ is the source term to estimate. The latter is related to pest density $p(x,y)$ by the relation $s = q(t) p(x,y)$ where $q$ is a time pheromone emission per insect.
`Pherosensor-toolbox` includes a finite volume solver defined on a cartesian scatter grid with implicit and semi-implicit time-schemes. `Pherosensor-toolbox` includes a finite volume solver defined on a cartesian scatter grid with implicit and semi-implicit time schemes.
## BI-DA to solve the inverse problem ## BI-DA to solve the inverse problem
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