spatstat.data: dendrite – R documentation

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dendrite

Dendritic Spines Data

Description

Dendrites are branching filaments which extend from the main body of a neuron (nerve cell) to propagate electrochemical signals. Spines are small protrusions on the dendrites.

This dataset gives the locations of 566 spines observed on one branch of the dendritic tree of a rat neuron. The spines are classified according to their shape into three types: mushroom, stubby or thin.

The data have been analysed in Jammalamadaka et al (2013) and Baddeley et al (2014). Please cite these papers and acknowledge the Kosik Lab, UC Santa Barbara, in any use of the data.

Usage

data("dendrite")

Format

Object of class "lpp". See lpp.

Source

Kosik Lab, UC Santa Barbara (Dr Kenneth Kosik, Dr Sourav Banerjee). Formatted for spatstat by Dr Aruna Jammalamadaka.

References

Baddeley, A, Jammalamadaka, A. and Nair, G. (2014) Multitype point process analysis of spines on the dendrite network of a neuron. Applied Statistics (Journal of the Royal Statistical Society, Series C), 63, 673–694.

Jammalamadaka, A., Banerjee, S., Manjunath, B.S. and Kosik, K. (2013) Statistical Analysis of Dendritic Spine Distributions in Rat Hippocampal Cultures. BMC Bioinformatics 14, 287.

Examples

if(require(spatstat.linnet)) {
plot(dendrite,leg.side="bottom", main="", cex=0.75, cols=2:4)
  }

spatstat.data

Datasets for 'spatstat' Family

v2.1-0

GPL (>= 2)

Authors

Adrian Baddeley [aut, cre] (<https://orcid.org/0000-0001-9499-8382>), Rolf Turner [aut] (<https://orcid.org/0000-0001-5521-5218>), Ege Rubak [aut] (<https://orcid.org/0000-0002-6675-533X>), W Aherne [ctb], Freda Alexander [ctb], Qi Wei Ang [ctb], Sourav Banerjee [ctb], Mark Berman [ctb], R Bernhardt [ctb], Thomas Berndtsen [ctb], Andrew Bevan [ctb], Jeffrey Betts [ctb], Ray Cartwright [ctb], Richard Condit [ctb], Francis Crick [ctb], Marcelino de la Cruz Rot [ctb], Jack Cuzick [ctb], Tilman Davies [ctb], Peter Diggle [ctb], Michael Drinkwater [ctb], Stephen Eglen [ctb], Robert Edwards [ctb], AE Esler [ctb], Gregory Evans [ctb], Bernard Fingleton [ctb], Olivier Flores [ctb], David Ford [ctb], Robin Foster [ctb], Janet Franklin [ctb], Neba Funwi-Gabga [ctb], DJ Gerrard [ctb], Andy Green [ctb], Tim Griffin [ctb], Ute Hahn [ctb], RD Harkness [ctb], Arthur Hickman [ctb], Stephen Hubbell [ctb], Austin Hughes [ctb], Jonathan Huntington [ctb], MJ Hutchings [ctb], Jackie Inwald [ctb], Valerie Isham [ctb], Aruna Jammalamadaka [ctb], Carl Knox-Robinson [ctb], Mahdieh Khanmohammadi [ctb], Tero Kokkila [ctb], Bas Kooijman [ctb], Kenneth Kosik [ctb], Peter Kovesi [ctb], Lily Kozmian-Ledward [ctb], Robert Lamb [ctb], NA Laskurain [ctb], George Leser [ctb], Marie-Colette van Lieshout [ctb], AF Mark [ctb], Jorge Mateu [ctb], Annikki Makela [ctb], Enrique Miranda [ctb], Nicoletta Nava [ctb], M Numata [ctb], Matti Nummelin [ctb], Jens Randel Nyengaard [ctb], Yosihiko Ogata [ctb], Si Palmer [ctb], Antti Penttinen [ctb], Sandra Pereira [ctb], Nicolas Picard [ctb], William Platt [ctb], Stephen Rathbun [ctb], Brian Ripley [ctb], Roger Sainsbury [ctb], Dietrich Stoyan [ctb], David Strauss [ctb], L Strand [ctb], Masaharu Tanemura [ctb], Graham Upton [ctb], Bill Venables [ctb], Sasha Voss [ctb], Rasmus Waagepetersen [ctb], Keith Watkins [ctb], H Wendrock [ctb]

Initial release

2021-03-16