diff --git a/docs/_tex/images/Box1.png b/docs/_tex/images/Box1.png new file mode 100644 index 0000000..7d3d9dd Binary files /dev/null and b/docs/_tex/images/Box1.png differ diff --git a/docs/_tex/images/NetworkFuture.png b/docs/_tex/images/NetworkFuture.png new file mode 100644 index 0000000..45f3ad0 Binary files /dev/null and b/docs/_tex/images/NetworkFuture.png differ diff --git a/docs/_tex/images/future_use.png b/docs/_tex/images/future_use.png deleted file mode 100644 index 477d8ea..0000000 Binary files a/docs/_tex/images/future_use.png and /dev/null differ diff --git a/docs/_tex/images/representations.png b/docs/_tex/images/representations.png index 71f45f9..b5e5bd3 100644 Binary files a/docs/_tex/images/representations.png and b/docs/_tex/images/representations.png differ diff --git a/docs/_tex/index.tex b/docs/_tex/index.tex index b9afd8a..3bbf968 100644 --- a/docs/_tex/index.tex +++ b/docs/_tex/index.tex @@ -212,7 +212,7 @@ 1% }% } -\date{2024-10-06} +\date{2024-10-07} \usepackage{setspace} \usepackage[left]{lineno} @@ -616,60 +616,49 @@ \section{Network construction is representations in the context of trying to understand the feeding dynamics of a seasonal community. -\begin{tcolorbox}[enhanced jigsaw, opacitybacktitle=0.6, opacityback=0, arc=.35mm, toprule=.15mm, colback=white, title=\textcolor{quarto-callout-note-color}{\faInfo}\hspace{0.5em}{Box 1 - Why we need to aggregate networks at different scales: A -hypothetical case study}, breakable, titlerule=0mm, colframe=quarto-callout-note-color-frame, leftrule=.75mm, bottomrule=.15mm, colbacktitle=quarto-callout-note-color!10!white, rightrule=.15mm, bottomtitle=1mm, coltitle=black, toptitle=1mm, left=2mm] +\begin{tcolorbox}[enhanced jigsaw, colbacktitle=quarto-callout-note-color!10!white, opacityback=0, colback=white, breakable, arc=.35mm, left=2mm, toprule=.15mm, rightrule=.15mm, bottomrule=.15mm, toptitle=1mm, title=\textcolor{quarto-callout-note-color}{\faInfo}\hspace{0.5em}{Box 1 - Why we need to aggregate networks at different scales: A +hypothetical case study}, titlerule=0mm, coltitle=black, opacitybacktitle=0.6, bottomtitle=1mm, leftrule=.75mm, colframe=quarto-callout-note-color-frame] + +\begin{quote} +not I am using a figure for layout purposes +\end{quote} Although it might seem most prudent to be predicting, constructing, and defining networks that are the closest representation of reality there are pros and cons of constructing both realised networks as well as -metawebs. Let us take for example a community across time/through -seasons. In this community we expect species to be either present or -absent depending on the season (\emph{i.e.,} changes in co-occurrence) -as well as some species exhibiting seasonal diet shifts, these details -would be lost at the scale of the metaweb an it would be valuable to -construct either smaller metawebs for the different seasonal communities -(thereby capturing the changes in community diversity), or realised -networks for each season (to capture diet or ecosystem process shifts). -However, these small-scale networks lack the context of the bigger -picture that is available at the metaweb - that is it gives us a more -holistic idea of the entire diet range of a specific species, which is -important when one needs to make conservation-based/applied decisions -(\emph{e.g.,} conserving the entire diet of a species and not just -seasonal prey items) as well as providing information on interactions -that may be possible regardless of the environmental/community context -(species may have the capacity to consume certain prey items but do not -do so due to local conditions). With this is mind let us see how the -different network aggregations can be used - -\textbf{1: A global metaweb} - -Knowledge of the entire diet breadth of a species is valuable especially -in terms of understanding how a species will respond to changes in the -community - \emph{e.g.,} invasions/rewilding exercises (where does the -new species `fit' within the network?) as well as potential capacity to -shift its diet. ALthough this might make sense across space and not time -but certain species act as links across the landscape. - -\textbf{2: A seasonal metaweb} - -Knowledge at the finer scale is also valuable to understand/identify -that there are in fact differences between the seasons - -\textbf{3: A seasonal realised network} - -Dynamics are useful because they are a representation of the different -configurations/energy flows/ecosystem processes. Also to detect more -nuanced shifts in diet - \emph{e.g.,} seasonal diet shifts. - -\textbf{4: A structural network} - -\textbf{Data trade off} - -Above we highlight the practical uses of the different network -configurations but we also need to take into consideration the barriers -to construction/associated data needs/cost and acknowledge them. -Basically in the ideal world we would have all this information at hand -but in reality we might be sitting with seasonal metawebs\ldots{} +metawebs. Let us take for example a community that experiences a degree +of species turnover between seasons. In this community we expect species +to be either present or absent depending on the season (\emph{i.e.,} +changes in co-occurrence) as well as some species exhibiting seasonal +shifts in their diets (be that due to changes in species occurrence or +predator choice). If one were to construct a metaweb that disregards +these season shifts (`global metaweb') these details would be lost and +it would be valuable to construct either smaller metawebs for the +different seasonal communities (thereby capturing the changes in +community diversity), or realised networks for each season (to capture +diet or ecosystem process shifts). However, these small-scale networks +lack the context of the bigger picture that is available at the metaweb +- that is it gives us a more holistic idea of the entire diet range of a +specific species, which is important when one needs to make +conservation-based/applied decisions (\emph{e.g.,} conserving the entire +diet of a species and not just seasonal prey items) as well as providing +information on interactions that may be possible regardless of the +environmental/community context (species may have the capacity to +consume certain prey items but do not do so due to local conditions). +With this is mind let us see how the different network aggregations can +be used + +\begin{figure}[H] + +\centering{ + +\captionsetup{labelsep=none}\includegraphics{images/Box1.png} + +} + +\caption{\label{fig-box}} + +\end{figure}% \end{tcolorbox} @@ -846,11 +835,11 @@ \section{The future value of \centering{ -\includegraphics{images/future_use.png} +\includegraphics{images/NetworkFuture.png} } -\caption{\label{fig-future}Aa attempt to try and visualise a way to map +\caption{\label{fig-future}An attempt to try and visualise a way to map the different scales of network representations to the way in which we can interrogate/ask questions about them?} diff --git a/docs/images/Box1.png b/docs/images/Box1.png new file mode 100644 index 0000000..7d3d9dd Binary files /dev/null and b/docs/images/Box1.png differ diff --git a/docs/images/NetworkFuture.png b/docs/images/NetworkFuture.png new file mode 100644 index 0000000..45f3ad0 Binary files /dev/null and b/docs/images/NetworkFuture.png differ diff --git a/docs/images/future_use.png b/docs/images/future_use.png deleted file mode 100644 index 477d8ea..0000000 Binary files a/docs/images/future_use.png and /dev/null differ diff --git a/docs/images/representations.png b/docs/images/representations.png index 71f45f9..b5e5bd3 100644 Binary files a/docs/images/representations.png and b/docs/images/representations.png differ diff --git a/docs/index.docx b/docs/index.docx index 4f5562b..a42636e 100644 Binary files a/docs/index.docx and b/docs/index.docx differ diff --git a/docs/index.html b/docs/index.html index 8fd8eac..90325a7 100644 --- a/docs/index.html +++ b/docs/index.html @@ -10,7 +10,7 @@ - + Unveiling the Complexity of Food Webs: A Comprehensive Overview of Definitions, Scales, and Mechanisms @@ -107,10 +107,10 @@ - - + + - + @@ -354,7 +354,7 @@

Unveiling the Complexity of Food Webs: A Comprehensive Overvie
Published
-

October 6, 2024

+

October 7, 2024

@@ -486,16 +486,20 @@

3 Network constru
-

Although it might seem most prudent to be predicting, constructing, and defining networks that are the closest representation of reality there are pros and cons of constructing both realised networks as well as metawebs. Let us take for example a community across time/through seasons. In this community we expect species to be either present or absent depending on the season (i.e., changes in co-occurrence) as well as some species exhibiting seasonal diet shifts, these details would be lost at the scale of the metaweb an it would be valuable to construct either smaller metawebs for the different seasonal communities (thereby capturing the changes in community diversity), or realised networks for each season (to capture diet or ecosystem process shifts). However, these small-scale networks lack the context of the bigger picture that is available at the metaweb - that is it gives us a more holistic idea of the entire diet range of a specific species, which is important when one needs to make conservation-based/applied decisions (e.g., conserving the entire diet of a species and not just seasonal prey items) as well as providing information on interactions that may be possible regardless of the environmental/community context (species may have the capacity to consume certain prey items but do not do so due to local conditions). With this is mind let us see how the different network aggregations can be used

-

1: A global metaweb

-

Knowledge of the entire diet breadth of a species is valuable especially in terms of understanding how a species will respond to changes in the community - e.g., invasions/rewilding exercises (where does the new species ‘fit’ within the network?) as well as potential capacity to shift its diet. ALthough this might make sense across space and not time but certain species act as links across the landscape.

-

2: A seasonal metaweb

-

Knowledge at the finer scale is also valuable to understand/identify that there are in fact differences between the seasons

-

3: A seasonal realised network

-

Dynamics are useful because they are a representation of the different configurations/energy flows/ecosystem processes. Also to detect more nuanced shifts in diet - e.g., seasonal diet shifts.

-

4: A structural network

-

Data trade off

-

Above we highlight the practical uses of the different network configurations but we also need to take into consideration the barriers to construction/associated data needs/cost and acknowledge them. Basically in the ideal world we would have all this information at hand but in reality we might be sitting with seasonal metawebs…

+
+

not I am using a figure for layout purposes

+
+

Although it might seem most prudent to be predicting, constructing, and defining networks that are the closest representation of reality there are pros and cons of constructing both realised networks as well as metawebs. Let us take for example a community that experiences a degree of species turnover between seasons. In this community we expect species to be either present or absent depending on the season (i.e., changes in co-occurrence) as well as some species exhibiting seasonal shifts in their diets (be that due to changes in species occurrence or predator choice). If one were to construct a metaweb that disregards these season shifts (‘global metaweb’) these details would be lost and it would be valuable to construct either smaller metawebs for the different seasonal communities (thereby capturing the changes in community diversity), or realised networks for each season (to capture diet or ecosystem process shifts). However, these small-scale networks lack the context of the bigger picture that is available at the metaweb - that is it gives us a more holistic idea of the entire diet range of a specific species, which is important when one needs to make conservation-based/applied decisions (e.g., conserving the entire diet of a species and not just seasonal prey items) as well as providing information on interactions that may be possible regardless of the environmental/community context (species may have the capacity to consume certain prey items but do not do so due to local conditions). With this is mind let us see how the different network aggregations can be used

+
+
+
+ +
+
+Figure 2 +
+
+
@@ -531,10 +535,10 @@

5 The future valu
- +
-Figure 2: Aa attempt to try and visualise a way to map the different scales of network representations to the way in which we can interrogate/ask questions about them? +Figure 3: An attempt to try and visualise a way to map the different scales of network representations to the way in which we can interrogate/ask questions about them?
@@ -873,7 +877,8 @@

References

@@ -883,7 +888,7 @@

References

title = {Unveiling the {Complexity} of {Food} {Webs:} {A} {Comprehensive} {Overview} of {Definitions,} {Scales,} and {Mechanisms}}, - date = {2024-10-06}, + date = {2024-10-07}, langid = {en}, abstract = {Food webs are a useful abstraction and representation of the feeding links between species in a community and are used to @@ -905,7 +910,7 @@

References

Strydom, Tanya, Jennifer A. Dunne, Timothée Poisot, and Andrew P. Beckerman. 2024. “Unveiling the Complexity of Food Webs: A Comprehensive Overview of Definitions, Scales, and Mechanisms.” -TREE (One Can Dream...). October 6, 2024. +TREE (One Can Dream...). October 7, 2024. -