Jemma Stachelek, Christopher J. Madden, Stephen Kelly, Michelle Blaha (submitted). Improved estimation of phytoplankton abundance and fine-scale water quality features via simultaneous discrete and semi-continuous surveys.
| DataflowR | ggsn | remake | knitr |
| raster | maptools | gdalUtils | kableExtra |
| ggplot2 | cowplot | sf | magrittr |
| dplyr | viridis | fitdistrplus | gstat |
| ggrepel | sp | GGally | ggjoy |
Christopher J. Madden, Jemma Stachelek, Stephen Kelly, Michelle Blaha (2017) Florida Bay water quality estimated by underway flow-through measurement. KNB Data Repository. http://dx.doi.org/10.5063/F11R6NGR
Building the figures, tables, and manuscript has been streamlined with GNU make. See the items defined as build targets by running the following line in the terminal:
$ make help
## data copy data from archives
## data/goodyears.csv listing of surveys with good spatial coverage
## data/allstreaming.csv move streaming data from archive folder
## data/allgrabs.csv move grab data from archive folder
## figures create figures
## figures/multipanel.png create multipanel figure
## figures/multipanel_salinity.pngcreate salinity multipanel
## figures/multipanel_mb.png create multipanel figure zoomed to Manatee Bay
## figures/multipanel_jb.png create multipanel figure zoomed to Joe Bay
## figures/fbmap_dflow.png create Florida Bay basemap with dflow grab points
## figures/fbmap_wqmn.png create Florida Bay basemap with wqmn grab points
## figures/fbmap.png create 2 panel Florida Bay basemap with grab points
## figures/rain.png create rain time-series figure
## figures/chlboxplot.png create chlorophyll boxplot
## figures/nonchlboxplot.png create non-chlorophyll boxplot
## figures/chltimeseries.png create chlorophyll time-series plot
## figures/avmap.png create average chl and phycoc maps
## figures/boundaries.png create boundaries figure
## tables create tables
## manuscripts/est_coast/table_2.texcreate table 2
## ms compile ms
## diff create latexdiff pdf