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6cfc901
checked model for spatial dep
Sep 13, 2023
a0f28ea
getting EA & district mean from nested model
Oct 2, 2023
1ab2081
cleaned method desc and tried boundaries
Oct 2, 2023
4042e76
trying probability of EA for plasma Se
Oct 4, 2023
e5dfd81
improving data documentation
Nov 15, 2023
82d756f
clean and documented datasets
Nov 20, 2023
de1a0d5
adding data processing docu
Nov 20, 2023
2c07be8
finalising the method for aggregation
Nov 23, 2023
a60dc57
added boxplot of se variation per cluster and info on boundaries for …
Nov 23, 2023
74dd059
documenting matches between EAs in plasma & maize
Nov 24, 2023
99089e6
added admin boundaries docu and visuals
Dec 5, 2023
20a89b2
added predicted se
Jan 10, 2024
4d7a989
added plasma EAs to predicted values
Jan 10, 2024
fc0b776
final model for maize se prediction
Jan 15, 2024
bee5a6f
added visualisation of the pred maize se and plasma
Jan 16, 2024
41a56d2
fixed: issue with districts in our shapefile
Jan 17, 2024
2fedad2
saved eas and dist shape and updated methods
Jan 19, 2024
5d6d9ed
testing book formatting
Jan 22, 2024
c6478ed
testing deployment
Jan 22, 2024
c117fac
fixed: folder issue
Jan 22, 2024
3d58776
fixed admin bnd for plasma and docu
Jan 22, 2024
7af076f
finished the aggregation shapefiles for aggregating maize and improve…
Jan 23, 2024
be04931
fixed docu and generate template for aggregation
Jan 24, 2024
54dbe99
added data for missing clusters and documentation of the decision
Jan 26, 2024
f8d4c25
generated aggregation for observed maize
Jan 29, 2024
00e9b78
all aggregation units first model testing
Jan 30, 2024
ccc53b9
run 10 models and got outputs
Jan 31, 2024
82eb247
added cluster random effect
Feb 1, 2024
eaa11f9
improved docu and performed buffer sensitivity
Feb 8, 2024
4b5dc86
added dist_to_wb and tested the model
Feb 13, 2024
b46a94b
tested world pop dist data
Feb 16, 2024
9d14fc8
added visual for maize aggregation
Feb 16, 2024
4897f45
added fish proxy and divide docu
Feb 26, 2024
f3429c8
added new visual and checked malaria influence
Mar 4, 2024
eb72235
starting writing model resutls
Mar 11, 2024
2dfc1b8
writing up kriging
Apr 14, 2024
a322038
added documentation for OK fitted model
Apr 30, 2024
b6d170a
finished kriging report
May 10, 2024
7149d6b
checking back transf values
May 10, 2024
f67cd28
improving transparency of method and testing new se results
May 17, 2024
b6aeb44
writing inla model
May 20, 2024
7a54517
added w idx and model results visualisation and docu
May 22, 2024
a64bf71
result viz
May 31, 2024
75a1d2b
added visuals for paper
Jun 1, 2024
61bd2e1
improved viz for dhs data
Jun 3, 2024
1ba2993
organised the repo for paper
Jul 18, 2024
044dd57
testing removing spde due spatial confounding
Sep 16, 2024
c649522
improved the INLA parameters and tested regional level
Oct 6, 2024
01ff9d4
checking values for plasma Se
Oct 8, 2024
df9f8b8
testing visuals
Nov 3, 2024
9124d51
added priors to the model
Dec 3, 2024
f2d14a3
finalising structure and visuals for coauthors
Dec 9, 2024
4f7acb8
prep github
Jan 23, 2025
223a4ac
fixing boundaries docu
Jan 23, 2025
b3389b9
cleaning the repo for publishing (v.0.0.0)
Jan 29, 2025
bcb6099
fixing typos in v.0.0.0
Jan 29, 2025
f595b5c
folder organised for gh-pages
Feb 5, 2025
6d34bc8
GitHub up to date
Feb 7, 2025
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20 changes: 17 additions & 3 deletions .gitignore
Original file line number Diff line number Diff line change
Expand Up @@ -41,16 +41,23 @@ vignettes/*.pdf
.Renviron

# pkgdown site
docs/
# docs/
docs/*.rmarkdown

# translation temp files
po/*~

# RStudio Connect folder
rsconnect/

# Data file
# Data file & other forlders
data/
exploratory/
excluded/
old_docs/*/

# Ethiopia case-study
ethiopia/

# produced presentations
presentation/*.html
Expand All @@ -59,4 +66,11 @@ presentation/*/

# outputs
*.pdf
visuals/
visuals/
*.dat
*.csv

# Documentation (html files)

documentation/*.html
/.quarto/
123 changes: 0 additions & 123 deletions 00_cleaning-boundaries.R

This file was deleted.

193 changes: 0 additions & 193 deletions 01_Explora_Malawi_model.R

This file was deleted.

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