R/summary.R
summary.neuronlist
computes tree statistics for all the
neurons in a neuronlist object
summary.neuron
computes statistics for individual neurons
summary.dotprops
computes statistics for individual
neurons in dotprops format. Note the veclength
argument.
# S3 method for neuronlist summary(object, ..., include.attached.dataframe = FALSE) # S3 method for neuron summary(object, ...) # S3 method for dotprops summary(object, veclength = 1, ...)
object | The neuron or neuronlist to summarise |
---|---|
... | For |
include.attached.dataframe | Whether to include the neuronlists attached metadata in the returned data.frame. |
veclength | The vector length to assume for each segment so that a cable length estimate can be made. |
A data.frame
summarising the tree properties of the neuron
with columns
root
nodes
segments
branchpoints
endpoints
cable.length
# summary for a whole neuronlist summary(Cell07PNs)#> root nodes segments branchpoints endpoints cable.length #> EBH11R 1 180 33 16 18 297.1763 #> EBH20L 1 200 26 12 15 327.0929 #> EBH20R 1 199 25 12 14 347.6153 #> EBI12L 1 169 23 11 13 294.4680 #> EBI22R 1 160 27 13 15 303.0150 #> EBJ23L 1 156 28 13 16 292.3298 #> EBJ3R 1 118 32 15 18 286.0233 #> EBN19L 1 162 31 15 17 314.7040 #> EBO15L 1 167 39 19 21 350.7743 #> EBO53L 1 175 26 12 15 314.9850 #> ECA34L 1 446 149 72 78 910.0081 #> ECB3L 1 366 124 57 68 936.4803 #> LI23L 1 188 29 14 16 236.5884 #> LIC2R 1 279 27 13 15 416.1551 #> LJ5L 1 154 29 14 16 241.9808 #> MC3B 1 118 27 13 15 280.7168 #> MH16L 1 171 22 10 13 261.7648 #> MM14L 1 216 23 11 13 305.3770 #> NA7L 1 121 13 6 8 186.6893 #> NH15L 1 83 26 12 15 212.3443 #> NH29B 1 101 34 16 19 231.5922 #> NI16L 1 122 28 13 16 226.2681 #> NIA8L 1 961 32 15 18 387.6834 #> NIA8R 1 797 25 12 14 332.4043 #> NNA9L 2 2481 171 84 88 991.7564 #> NNC4R 2 1902 125 61 65 864.2939 #> NNE1L 1 2500 163 78 86 1013.6281 #> OFD2L 1 2439 161 77 85 992.7070 #> OKC9R 1 2556 144 67 78 1013.9386 #> SDD8L 2 2452 151 74 78 1008.0937 #> SH21L 1 148 19 9 11 234.8228 #> SL20L 1 213 30 14 17 258.2600 #> TKC8R 2 605 11 4 8 254.0427 #> TL4R 1 135 25 11 15 211.1676 #> TS7L 1 176 33 16 18 244.8527 #> TT27R 1 168 30 14 17 226.0329 #> VA15R 1 147 17 8 10 213.8872 #> VA20R 1 160 21 10 12 215.0711 #> VB37L 1 162 14 6 9 218.7555 #> VB58L 1 154 17 8 10 231.9512# including the attached data.frame with additional metadata head(summary(Cell07PNs, include.attached.dataframe = FALSE))#> root nodes segments branchpoints endpoints cable.length #> EBH11R 1 180 33 16 18 297.1763 #> EBH20L 1 200 26 12 15 327.0929 #> EBH20R 1 199 25 12 14 347.6153 #> EBI12L 1 169 23 11 13 294.4680 #> EBI22R 1 160 27 13 15 303.0150 #> EBJ23L 1 156 28 13 16 292.3298# for a single regular format neuron summary(Cell07PNs[[1]])#> root nodes segments branchpoints endpoints cable.length #> 1 1 180 33 16 18 297.1763# for a single dotprops format neuron summary(kcs20[[1]])#> nodes cable.length #> 1 284 284# specify a different estimate for the cable length associated with a single # point in the neuron summary(kcs20[[1]], veclength=1.2)#> nodes cable.length #> 1 284 340.8