Update Readme file

.gitignore

@@ -6,11 +6,12 @@ gisdata
 grassdata
 
 # biblio bak
-bib/biblio.bib.bak
+manuscript/bib/biblio.bib.bak
 
 # Outputs
 outputs/*
 !outputs/fig_fcc_highres.png
+!outputs/defor_Mada.gif
 
 # Manuscript files
 manuscript/cover_letter
@@ -22,7 +23,7 @@ manuscript/manuscript.*
 .Rhistory
 .Rapp.history
 Rplots.pdf
-deforestmap.rda
+*.rda
 
 # Session Data files
 .RData

README.md

@@ -1,4 +1,6 @@
-# `deforestation-maps-Mada`: Sixty years of deforestation and forest fragmentation in Madagascar
+# deforestation-maps-Mada
+
+## Sixty years of deforestation and forest fragmentation in Madagascar
 
 This repository includes the R script and data used to derive the results of the following article:
 
@@ -11,10 +13,9 @@ The results of the study are fully reproducible running the R/GRASS script `defo
 ## File and folder description
 
 - `data`: folder including two tables with forest-cover and deforestation data from previous studies.
-- `gisdata`: folder including raster and vector data necessary for the analysis.
 - `manuscript`: folder including all the files (in particular the `.Rmd` file) used to produce the manuscript.
-- `manuscript/bib`: folder including bibliographic files (references and style).
-- `manuscript/figs`: folder including figures used in the manuscript.
+    - `manuscript/bib`: folder including bibliographic files (references and style).
+    - `manuscript/figs`: folder including figures used in the manuscript.
 - `output`: folder including outputs from the R script.
 - `R`: folder including an R script to plot the forest cover change figure.
 
@@ -42,10 +43,12 @@ The script have not been tested on Windows but minimal changes to the code shoul
 
 Previous reports on deforestation in Madagascar might not be accessible on the long term at their original web address. These reports have been archived on a private Google Drive repository [here](https://drive.google.com/drive/folders/1nq8CuMacT0uZuNO6q05al94d6KYp1FaK?usp=sharing). In particular, the following reports have been made available:
 
-
+- MEFT, USAID, and CI. (2009). Evolution de la couverture de forêts naturelles à Madagascar, 1990-2000-2005. Antananarivo.
+- ONE, DGF, FTM, MNP, and CI. (2013). Evolution de la couverture de forêts naturelles à Madagascar 2005-2010. Antananarivo. [url](https://www.pnae.mg/couverture-de-forets-naturelles-2005-2010).
+- ONE, DGF, MNP, WCS, and Etc Terra. (2015). Changement de la couverture de forêts naturelles à Madagascar, 2005-2010-2013. Antananarivo. [url](https://www.pnae.mg/couverture-de-forets-naturelles-2005-2010-2013).
 
 ## Figure
 
-<img alt="Evolution deforestation" src="outputs/fig_fcc_highres.png" width="1000">
-
+Figure 2. **Forest-cover change on six decades from 1953 to 2014 in Madagascar.** Forest cover changes from _c._ 1973 to 2014 are shown in the main figure, and forest cover in _c._ 1953 is shown in the bottom-right inset. Two zooms in the western dry (left part) and eastern moist (right part) ecoregions present more detailed views of (from top to bottom): forest-cover in 1950s, forest-cover change from _c._ 1973 to 2014, forest fragmentation in 2014 and distance to forest edge in 2014. Data on water bodies (blue) and water seasonality (light blue for seasonal water to dark blue for permanent water) has been extracted from Pekel et al. (2016).
 
+<img alt="Evolution deforestation" src="outputs/fig_fcc.png" width="1000">

manuscript/manuscript.tex

@@ -460,7 +460,7 @@ \subsection{Fragmentation}
 \begin{figure*}[h]
   \centering
 
-  \includegraphics[width=\textwidth]{fig_fcc_highres.png}
+  \includegraphics[width=\textwidth]{fig_fcc.png}
 
   \caption{\textbf{Forest-cover change on six decades from 1953
       to 2014 in Madagascar.} Forest cover changes from \emph{c.} 1973 to 2014