spatstat statistics

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spatstat specifications


Unique identifier OMICS_32553
Name spatstat
Software type Package/Module
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux, Mac OS, Windows
Programming languages C, C++, R
License GNU General Public License version 3.0
Computer skills Advanced
Version 1.56-1
Stability Stable
Maintained Yes




No version available



  • person_outline Adrian Baddeley
  • person_outline Rolf Turner

Additional information

Publication for spatstat

spatstat citations


Phase II study of ruxolitinib, a selective JAK1/2 inhibitor, in patients with metastatic triple negative breast cancer

PMCID: 5935675
PMID: 29761158
DOI: 10.1038/s41523-018-0060-z

[…] diversity between matched baseline and cycle 2 samples using the paired Wilcoxon rank-sum test, and also determined the differences in these fractions using the Wilcoxon rank-sum test. The R package Spatstat was used to visualize the topological distribution of each type in each slide. Finally, we evaluated the association between diversity and CD8+ T-cell counts for primary and metastatic sample […]


Facial bone fragmentation in blind cavefish arises through two unusual ossification processes

Sci Rep
PMCID: 5934472
PMID: 29725043
DOI: 10.1038/s41598-018-25107-2

[…] nto bins in R. The number of bins was established in order to preserve the 5:3 ratio of pixels in the images. The number of coordinates in each bin were counted and visualised as a heat map using the Spatstat package (v1.51-0). Permutations (10) increased amount of variance among bins enabled better color distinction in the plot, while accurately preserving the proportion of carving events by posi […]


Relative importance of population size, fishing pressure and temperature on the spatial distribution of nine Northwest Atlantic groundfish stocks

PLoS One
PMCID: 5919506
PMID: 29698454
DOI: 10.1371/journal.pone.0196583

[…] Several R [] packages were used in this analysis: spatial indicators were calculated in RGeostats []; Dirichlet tessellae were calculated in spatstat []; generalized least squares fits were modeled in nlme []; while the relative importance of predictors and model averaged predictor estimates were calculated with MuMIn []. Time series autor […]


Intragroup competition predicts individual foraging specialisation in a group‐living mammal

Ecol Lett
PMCID: 5947261
PMID: 29542220
DOI: 10.1111/ele.12933

[…] overlaid (Fig. ). The total area is simply the shape defined by the curve derived from the union of all the group members ellipses which we calculated using the function union.owin from the R package spatstat (Baddeley et al. ). A helper function siberKapow and explanatory vignettes have been added to R package SIBER (Jackson & Parnell ) to perform these calculations, and produce figures visualisi […]


Risk factors for measles mortality and the importance of decentralized case management during an unusually large measles epidemic in eastern Democratic Republic of Congo in 2013

PLoS One
PMCID: 5851624
PMID: 29538437
DOI: 10.1371/journal.pone.0194276

[…] west p value, variables were retained when p<0.05 using the Wald test.We also conducted geospatial analyses of the measles CFR for the periods prior to and during the MSF intervention. The R package ‘Spatstat’ was used to create point pattern datasets, applying cluster-specific estimates of CFR to coordinates of each cluster. We then used a Gaussian kernel function to smooth this data, and reporte […]


Association between sea lice (Lepeophtheirus salmonis) infestation on Atlantic salmon farms and wild Pacific salmon in Muchalat Inlet, Canada

Sci Rep
PMCID: 5838213
PMID: 29507330
DOI: 10.1038/s41598-018-22458-8

[…] a point process to represent a kernel density with a 30 km bandwidth. The points were simulated with ‘splancs’ package (, and the kernel density surface with ‘spatstat’ package ( in R, and the maps were generated with QGIS. […]


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spatstat institution(s)
University of Western Australia, Crawley, WA, Australia; University of New Brunswick, Fredericton, NB, Canada

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