-
convert
error
toRf_error
insrc/ml_sse.c
to accommodate R_NO_REMAP -
re-instate rgeoda references
- Remove remaining
spData
ESRI shapefile use
-
(temporarily) remove rgeoda references until it is successfully re-submitted to CRAN
-
add
write.swmdbf
#171 to complement #163 -
modify defaults for
licd_multi
-
adding vignette describing recent changes in
poly2nb
from #162, subgraph and no-neighbour (island) handling -
adding prototype of LICD ESDA function
licd_multi
andhotspot
method -
add
read.swmdbf2listw
#163 for reading DBF files exported from ArcGIS representing SWM objects; note that there will be problems when the observation IDs are not known, see help file -
#162 add option for no-neighbour checking for
poly2nb
- default report whether no-neighbour observations are present -
#162 change the default
snap=
argument topoly2nb
to 10mm -
Condition on forthcoming
tmap
4 -
#160 handle
n.comp.nb
delay inprint.nb
and elsewhere when the total number of neighbours is large
-
#157 migrate ESRI Shapefile to GPKG files; convert bhicv.shp to GPKG
-
#155 Throw error if
hotspot
despatched on object without a"quadr"
attribute -
#154 turn on
s2
in vignette
-
add
scale
argument togeary.test
,geary.mc
andgeary
#151, and appropriate tests -
Introduce error in
knearneigh
fork
less than the largest count of identical points; if encountered, increasek
-
remove spurious warning in
knearneigh
for longlat geometries -
fix edzer/sdsr#121, wrong assignment of old test names in
lmRStests
-
fix #144 in
plot.nb
andnb2lines
-
change
lm.LMtests
tolm.RStests
and re-name Lagrange multiplier to Rao's score; addGNM_
prefix to test names if the input object inherits fromSlX
created byspatialreg::lmSLX
(Koley, forthcoming) -
add
SD.RStests
implementation of Rao's score tests for spatial Durbin models (Koley and Bera, 2024) and for SDEM models (Koley, forthcoming) -
#143
row.names
pass-through inpoly2nb
corrected, harmonisedrow.names
pass-through also innbdists
anddnearneigh
-
#139 add
na.action
argument togeary.test
,geary.mc
andglobalG.test
-
add
style
tosn2listw
use intri2nb
-
functions creating
nb
objects now warn if the object has a sub-graph count of > 1 andget.SubgraphOption
isTRUE
(defaultFALSE
):complement.nb
,diffnb
,dnearneigh
,droplinks
,edit.nb
,graph2nb
,knn2nb
,nb2blocknb
,nblag
,nblag_cumul
,poly2nb
,read.gal
,read.gwt2nb
,setdiff.nb
,tolerance.nb
,tri2nb
,union.nb
-
summary.nb
,print.nb
,summary.listw
andprint.listw
now report the subgraph count fromn.comp.nb
if it is more than one -
subset.nb
now reports if the subgraph count of the neighbour object increases on subsetting -
adding a
zero.policy
attribute to functions creatinglistw
objects:nb2listw
,sn2listw
,mat2listw
,nb2listwdist
. Defaultzero.policy=
argument updated to useattr(., "zero.policy")
insummary.listw
,print.listw
,moran
,moran.test
,moran.mc
,moran.plot
,geary.mc
,geary
,geary.test
,globalG.test
,joincount.test
,joincount.mc
,joincount.multi
,localC
,localC_perm
,localmoran
,localmoran_perm
,localG
,localG_perm
,lee
,lee.test
,lee.mc
,lm.morantest
,lm.LMtests
,sp.mantel.mc
,listw2star
,lag.listw
,lm.morantest
,lm.LMtests
,subset.listw
,EBImoran.mc
,LOSH
,LOSH.mc
,LOSH.cs
,lm.morantest.exact
andlm.morantest.sad
-
confusing error message in
moran.plot()
if no-neighbour cases, butzero.policy=FALSE
-
replace
rgrass7
withrgrass
in vignette -
fix #133 (
edit.nb
affected by not attachingsp
)
-
mat2listw()
warning if nostyle=
argument given, or ifM"
is given r-spatial/spatialreg#24, r-spatial/spatialreg#23. -
remaining users of
run_perm()
-localC()
,localmoran_bv()
andlocal_joincount_uni()
getno_repeat_in_row=
arguments. -
Address 2) in #124;
localG_perm()
andlocalmoran_perm()
getno_repeat_in_row=
arguments to use conditional permutation without replacement by sample vectors; the default implementation uses sampling with replacement, which is acceptable across simulation draws, but arguably less acceptable within draws. Feedback would be valued. -
Address 1) in #124;
localG_perm()
andlocalG()
now return the same analytical standard deviates. The standard deviates from the simulated distributions are now returned inattr(., "internals")[,"StdDev.Gi"]
fromlocalG_perm()
, as are p-values, etc. -
move sp from Depends to Imports, to reduce the visual impression that sp objects are required for spdep; sf objects are now preferred, but sp objects can be used as before, although users may need to attach sp expliciitly.
-
fix #121 and #123; correcting returned values for
localG_perm()
when estimating the G-star measure (fix self x values and weights) -
address #120, moving documentation of
listw2U()
from?lm.morantest
to?nb2listw
-
addressing #119 for interpretation of
moran_bv()
results -
adding #116, René Westerholt
-
fix #113, too low R version for
grDevices::hcl.colors()
-
addressing #111 by Josiah Parry
-
PRs from René Westerholt, ending with #109, for the local GS measure
-
#103 refactoring local joincount test by Josiah Parry
-
add
hotspot
methods forlocalmoran
(analytical, permutation, Saddlepoint and exact),localC
(univariate and multivariate) andlocalG
(analytical and permutation) -
#95 add
"two.sided"
tolee.mc()
, same forsp.mantel.mc()
,EBImoran.mc()
,joincount.mc()
,geary.mc()
-
#92, #93, #94, #96, #97 contributions of prototype bivariate Moran, local bivariate Moran and local joincount and bivariate joincount tests by Josiah Parry
-
#91
tolerance.nb()
update by F. Guillaume Blanchet -
updating coercion for Matrix 1.4-2
-
fix ncpus issue in dontrun examples
-
remove suggested packages rgdal, rgeos, maptools
-
permit use of data.frame or tibble as matrix for functions creating neighbour objects from 2D points (preferred use an object inheriting from ``"SpatialPoints"
or
"sfc"`) -
fix #87 wrong logic in infinite weights in
nb2listwdist()
-
r-spatial/s2#174 speeds up
dnearneigh()
for geographical coordinates without usings2::s2_closest_edges()
. -
Adapting vignettes for absence of rgdal and maptools
-
added
remove.self()
, thanks to Josiah Parry #83. -
unescape underscores in help pages.
-
replace deprecated S-compatibility macros
DOUBLE_
-
#81 improved
dnearneigh()
help page. -
#79 remove
"htest"
class fromLOSH.mc()
output object. -
Added GA SI article to citations.
-
Replace
rainbow()
byhcl.colors(..., "Set 2")
inplot.skater()
. -
Add link to R-sig-geo thread on
EBlocal()
NaN estimates when many counts are zero on help page. -
Revise and add documentation for object returned by
localC_perm()
#68 #72 #73 #74 #75 #76 -
localmoran.sad()
,localmoran.exact()
andlocalmoran.exact.alt()
will now use multiple compute nodes if needed; ifOmega
is used, multiple cores may need more memory #77 -
For s2 > 1.0.7, use indexed distances in
dnearneigh()
r-spatial/s2#162.
- Switching deprecated functions moved to spatialreg to defunct.
-
Recent changes in
poly2nb()
had reduced and most recently (1.1-8) removed the use ofsnap=
in finding candidate neighbours; many thanks to Matilda Brown for a clear and well-documented issue #65 -
Add local Geary's C #66 thanks to Josiah Parry, discussion on further work on #68
-
localmoran_perm()
returns both look-up and folded rank p-values
-
In
poly2nb()
, reverted removal of legacy interpreted overlapping envelope code for sp objects that cannot be coerced to sf without rgeos. -
Add Fortran character handling
USE_FC_LEN_T
WRE §6.6.1. -
Checks OK with forthcoming deldir 1.0-0.
-
Fixes #62 clarifying
dnearneigh()
help page
-
knearneigh()
andnbdists()
; added prototype adaptation to s2 for unprojected coordinates, used ifsf_use_s2()
isTRUE
which became the default for sf 1.0.0 r-spatial/s2#125. These are activated by default. -
dnearneigh()
can choose the prototype s2 approach ifsf_use_s2()
isTRUE
anduse_s2=TRUE
for unprojected coordinates; from r-spatial/s2#125 it seems that distance thresholds at present use brute-force rather than spatial indexing. Use is not activated by default. -
poly2nb()
now usessf::st_intersects()
to find candidate neighbours unlessfindInBounds=
is not NULL. With spatial indexing, this is very fast and scales well for large data sets. Ifsf_use_s2()
isTRUE
,sf::st_intersects()
passes the geometries tos2::s2_intersects_matrix()
, which also uses spatial indexing and is very fast, scaling well for large data sets. -
localmoran()
andlocalmoran_perm()
return cluster quadrants in an attribute for three splits, zeros, means and medians on the variable of interest and its spatial lag. -
localmoran_perm()
returns the skewness and kurtosis of the permutation samples.
-
#55 related to #20 and cycling order in setting up grids provoked re-design of interface to
cell2nb()
, with passing of"GridTopology"
or"SpatialGrid"
objects as unnamed first orx=
argument. Coerce"RasterLayer"
or similar raster, terra or stars objects to sp class objects first if need be. -
In working with renewing the arguments to
cell2nb()
, it was useful to add tinytest support, which is now present for this function and may be extended to other functions for creating"nb"
objects. -
#58 contributed by Jeff Sauer and Levi Wolf (from https://doi.org/10.31219/osf.io/ugkhp) providing conditional standard deviates for local Moran's I
-
Error in assignment to matrix detected by CRAN check in SIDS vignette, section on median polish
-
Changes to continuous integration and vignettes.
-
Error in
poly2nb(, queen=FALSE)
in sf grids (double counting of closed polygon start/end points), #50, thanks to Christopher Kenny. -
Adding local Moran and local G conditional permutation:
localmoran_perm()
andlocalG_perm()
. -
Adding
nb2listwdist()
contributed by René Westerholt. -
Adding use of sf through GEOS to find polygon contiguity candidates in
poly2nb()
if geometry count >= 500 - uses intersections in polygon envelopes. -
#38, #53 removing RANN, adding dbscan suggestions for fast
dnearneigh()
andknearneigh()
viause_kd_tree=
argument for fast planar neighbour set finding in 2D and 3D. Affectssoi.graph()
too, which had used RANN. -
#54 avoid partial matching in
glist=
handling. -
Disambiguating spdep and spatialreg model output object class names prior to making spdep model fitting functions defunct.
- Replacing broken geoda URLs, moving knitr to rmarkdown, work-around missing weights files in spData.
- A small maintenance update to accommodate a forthcoming change in spData (a dataset used in an example in spdep from spData is changing its name; the name had involved putting "x", "y" and "xyz" in the global environment through lazy loading a dataset).
- Follow-up version of spdep with all the functions and methods transferred to the spatialreg package marked as deprecated, but still exported from spdep. Reverse dependencies passing with the released version still pass for me with this version.