nat: NeuroAnatomy Toolbox for Analysis of 3D Image Data

NeuroAnatomy Toolbox (nat) enables analysis and visualisation of 3D biological image data, especially traced neurons. Reads and writes 3D images in NRRD and 'Amira' AmiraMesh formats and reads surfaces in 'Amira' hxsurf format. Traced neurons can be imported from and written to SWC and 'Amira' LineSet and SkeletonGraph formats. These data can then be visualised in 3D via 'rgl', manipulated including applying calculated registrations, e.g. using the 'CMTK' registration suite, and analysed. There is also a simple representation for neurons that have been subjected to 3D skeletonisation but not formally traced; this allows morphological comparison between neurons including searches and clustering (via the 'nat.nblast' extension package).

AuthorGregory Jefferis [aut, cre], James Manton [aut]
Date of publication2016-11-10 08:18:57
MaintainerGregory Jefferis <jefferis@gmail.com>
LicenseGPL-3
Version1.8.7
https://github.com/jefferis/nat
http://jefferislab.org

View on CRAN

Man pages

affmat2cmtkparams: Decompose homogeneous affine matrix to CMTK registration...

all.equal.dotprops: all.equal method tailored to dotprops objects

all.equal.im3d: Check equality on data and key attributes of im3d objects

all.equal.neuron: Check equality on key fields of neuron object

amiramesh-io: Read AmiraMesh data in binary or ascii format

amiratype: Return the type of an amiramesh file on disk or a parsed...

as.im3d: Convert a suitable object to an im3d object.

as.mesh3d: Convert an object to an rgl mesh3d

as.neuronlist: Make a list of neurons that can be used for coordinate...

as.neuronlist.neuronlistfh: convert neuronlistfh to a regular (in memory) neuronlist

boundingbox: Get the bounding box of an im3d volume or other compatible...

Cell07PNs: Cell07PNs: 40 Sample Projection Neurons from Jefferis, Potter...

clampmax: Return function that finds maximum of its inputs within a...

cmtk.bindir: Return path to directory containing CMTK binaries

cmtk.call: Utility function to create and run calls to CMTK commandline...

cmtk.dof2mat: Convert CMTK registration to homogeneous affine matrix with...

cmtk.extract_affine: Extract affine registration from CMTK registration file or...

cmtk.mat2dof: Use CMTK mat2dof to convert homogeneous affine matrix into...

cmtkparams2affmat: Compose homogeneous affine matrix from CMTK registration...

cmtk.reformatx: Reformat an image with a CMTK registration using the...

cmtkreg: Create and test cmtkreg objects that specify path to a CMTK...

cmtkreglist: Make in-memory CMTK registration list from affine matrix or...

cmtk.statistics: Calculate image statistics for a nrrd or other CMTK...

cmtk.targetvolume: Defines a target volume for a CMTK reformatx operation

cmtk.version: Return cmtk version or test for presence of at least a...

c.neuronlist: Combine multiple neuronlists into a single list

coord2ind: Find 1D indices into a 3D image given spatial coordinates

dotprops: dotprops: Neurons as point clouds with tangent vectors (but...

dotprops-arithmetic: Arithmetic for dotprops objects

fileformats: Set or return list of registered file formats that we can...

find.neuron: Find neurons within a 3D selection box (usually drawn in rgl...

find.soma: Find neurons with soma inside 3D selection box (usually drawn...

flip: Flip an array, matrix or vector about an axis

get-set-neuronlist-data.frame: Get or set the attached data.frame of a neuronlist

graph.nodes: Return root, end, or branchpoints of an igraph object

im3d: Construct an im3d object representing 3D image data,...

im3d-coords: Interconvert pixel and physical coordinates

im3d-io: Read/Write calibrated 3D blocks of image data

image.im3d: Method to plot spatially calibrated image arrays

imexpand.grid: Convert locations of im3d voxel grid into XYZ coordinates

imscalebar: Make a scalebar to accompany an image.im3d plot

imslice: Slice out a 3D subarray (or 2d matrix) from a 3D image array

ind2coord: Find XYZ coords corresponding to 1D indices into a 3D image

intersect: Find the intersection of two collections of objects

is.amiramesh: Check if file is amiramesh format

is.fijitraces: Check whether a file is in Fiji's simple neurite tracer...

is.im3d: Test if an object is of class im3d

is.neuroml: Check whether a file is in NeuroML format

is.neuronlist: Test objects of neuronlist class to store multiple neurons

is.nrrd: Check if a file is a NRRD file

is.swc: Test if a file is an SWC format neuron

is.vaa3draw: Check if a file is in the raw image format used by Hanchuan...

kcs20: List of 20 Kenyon Cells from Chiang et al 2011 converted to...

mask: Mask an object, typically to produce a copy with some values...

materials: Extract or set the materials for an object

MBL.surf: Surface object (hxsurf) for the left mushroom body in FCWB...

mirror: Mirror 3D object about a given axis, optionally using a...

nat-package: Analyse 3D biological image data especially neurons

ndigest: Calculated normalised digest value for an object

neuron: neuron: class to represent traced neurons

neuron-arithmetic: Arithmetic for neuron coordinates

neuronlist: Create a neuronlist from zero or more neurons

neuronlist-arithmetic: Arithmetic for neuron coordinates applied to neuronlists

neuronlist-dataframe-methods: Methods for working with the dataframe attached to a...

neuronlistfh: neuronlistfh - List of neurons loaded on demand from disk or...

ngraph: ngraph: a graph to encode a neuron's connectivity

nlapply: lapply and mapply for neuronlists (with optional...

nlscan: Scan through a set of neurons, individually plotting each one...

nopen3d: Open customised rgl window

normalise_swc: Normalise an SWC format block of neuron morphology data

npop3d: Remove plotted neurons or other 3D objects

nrrd.voxdims: Return voxel dimensions (by default absolute voxel...

origin: Return the space origin of a 3D image object

pan3d: Some useful extensions / changes to rgl defaults

plot3d: plot3d methods for different nat objects

plot3d.boundingbox: Plot a bounding box in 3D

plot3d.dotprops: 3D plots of dotprops objects using rgl package

plot3d.hxsurf: Plot amira surface objects in 3D using rgl

plot3d.neuron: Plot neurons in 3D using rgl library

plot3d.neuronlist: 3D plots of the elements in a neuronlist, optionally using a...

plot.neuron: Plot a 2D projection of a neuron

plot.neuronlist: 2D plots of the elements in a neuronlist, optionally using a...

pointsinside: Find which points of an object are inside a surface

potential_synapses: Calculate number of potential synapses between two neurons

projection: Make 2D (orthogonal) projection of 3D image data

prune: prune an object by removing points near (or far) from a...

prune_strahler: Prune a neuron by removing segments with a given Strahler...

prune_vertices: Prune selected vertices or edges from a neuron

read.cmtk: Read CMTK TypedStream file to a list in memory

read.cmtkreg: Read a CMTK format registration

read.hxsurf: Read Amira surface (aka HxSurface or HyperSurface) files into...

read.landmarks: Generic functions to read/write landmarks in any supported...

read.morphml: Return parsed XML or R list versions of a NeuroML file

read.neuron: Read a single neuron from a file

read.neuron.fiji: Read a neuron saved by Fiji's Simple Neurite Tracer Plugin

read.neuronlistfh: Read a local, or remote, neuronlistfh object saved to a file.

read.neuron.neuroml: Read one or more neurons from a NeuroML v1 file

read.neurons: Read one or more neurons from file to a neuronlist in memory

read.neuron.swc: Read a neuron in swc file format

read.nrrd: Read nrrd file into an array in memory

read.vaa3draw: Read Vaa3d format image data

reglist: A simple wrapper class for multiple transformations

remotesync: Synchronise a remote object

resample: Resample an object with a new spacing

rootpoints: Return the root or branch points of a neuron or graph

scale.neuron: Scale and centre neuron 3D coordinates

seglengths: Calculate length of all segments in neuron

seglist: Make/convert neuron connectivity information into a seglist...

seglist2swc: Recalculate Neurons's SWCData using SegList and point...

segmentgraph: Return a simplified segment graph for a neuron

setdiff: Find the (asymmetric) difference between two collections of...

simplify_reglist: Simplify a registration list

smooth_neuron: Smooth the 3D coordinates of a neuron skeleton

spine: Compute the longest path (aka spine or backbone) of a neuron

strahler_order: Find the Strahler order of each point in a neuron

sub2ind: Find 1D index given n-dimensional indices

sub-.neuronlistfh: Extract from neuronlistfh object or its attached data.frame

subset: Subset methods for different nat objects

subset.dotprops: Subset points in dotprops object that match given conditions

subset.hxsurf: Subset hxsurf object to specified regions

subset.neuron: Subset neuron by keeping only vertices that match given...

subset.neuronlist: Subset neuronlist returning either new neuronlist or names of...

summary.neuron: Summary statistics for neurons (e.g. cable length, number of...

threshold: Threshold an object, typically to produce a mask

union: Find the union of two collections of objects

unmask: Make im3d image array containing values at locations defined...

voxdims: Return voxel dimensions of an object

write.amiramesh: Write a 3D data object to an amiramesh format file

write.cmtk: Write a suitable list to a CMTK TypedStream file on disk

write.cmtkreg: Write out CMTK registration list to folder

write.hxsurf: Write Amira surface (aka HxSurface or HyperSurface) into...

write.neuron: Write out a neuron in any of the file formats we know about

write.neuronlistfh: Write out a neuronlistfh object to an RDS file

write.neurons: Write neurons from a neuronlist object to individual files,...

write.nrrd: Write data and metadata to NRRD file or create a detached...

write.vtk: Write object to VTK file

xform: Transform the 3D location of objects such as neurons

xformimage: Transform image files using a registration or affine matrix

xformpoints: Transform 3D points using a registration, affine matrix or...

xyzmatrix: Get and assign coordinates for classes containing 3D vertex...

Files in this package

nat
nat/inst
nat/inst/CITATION
nat/inst/doc
nat/inst/doc/neurons-intro.R
nat/inst/doc/neurons-intro.html
nat/inst/doc/Installation.html
nat/inst/doc/Installation.Rmd
nat/inst/doc/neurons-intro.Rmd
nat/tests
nat/tests/testthat
nat/tests/testthat/test-ndigest.R
nat/tests/testthat/test-cmtk_geometry.R
nat/tests/testthat/test-cmtk.R
nat/tests/testthat/test-nrrd-io.R
nat/tests/testthat/test-amiramesh-io.R
nat/tests/testthat/test-cmtk-reformat.R
nat/tests/testthat/test-cmtk_io.R
nat/tests/testthat/test-potential_synapses.R
nat/tests/testthat/test-neuronlist.R
nat/tests/testthat/test-summary.R
nat/tests/testthat/test-landmarks-io.R
nat/tests/testthat/test-neuron-io.R
nat/tests/testthat/test-.neuronlistfh-remote-nocran.R
nat/tests/testthat/test-dotprops.R
nat/tests/testthat/test-reglist.R
nat/tests/testthat/test-ngraph.R
nat/tests/testthat/test-neuron.R
nat/tests/testthat/test-.neuron-io-remote-nocran.R
nat/tests/testthat/test-seglist.R
nat/tests/testthat/test-hxsurf.R
nat/tests/testthat/test-cmtkreg.R
nat/tests/testthat/test-coordinates.R
nat/tests/testthat/test-pop3d.R
nat/tests/testthat/test-xformimage.R
nat/tests/testthat/test-neuronlistfh.R
nat/tests/testthat/test-xformpoints.R
nat/tests/testthat/test-graph-nodes.R
nat/tests/testthat/test-xform.R
nat/tests/testthat/testdata
nat/tests/testthat/testdata/neuroml
nat/tests/testthat/testdata/neuroml/level1
nat/tests/testthat/testdata/neuroml/level1/SimpleNeuroML.xml
nat/tests/testthat/testdata/neuroml/level1/CablesIncluded.swc
nat/tests/testthat/testdata/neuroml/level1/L23PyrFRB.morph.xml
nat/tests/testthat/testdata/neuroml/level1/Simple.morph.xml
nat/tests/testthat/testdata/neuroml/level1/CablesIncluded.xml
nat/tests/testthat/testdata/neuroml/level1/Simple.morph.swc
nat/tests/testthat/testdata/neuron
nat/tests/testthat/testdata/neuron/EBT7R.CNG.swc
nat/tests/testthat/testdata/neuron/testCell07PNs1_spine.rds
nat/tests/testthat/testdata/neuron/testneuron_fclineset.am.gz
nat/tests/testthat/testdata/neuron/testneuron_am3d.am.gz
nat/tests/testthat/testdata/neuron/SinglePath.traces
nat/tests/testthat/testdata/neuron/SequentiallyBranchingTrace.traces
nat/tests/testthat/testdata/neuron/fitted.traces
nat/tests/testthat/testdata/neuron/EBT7R.am
nat/tests/testthat/testdata/neuron/XT6L2.CNG.swc
nat/tests/testthat/testdata/neuron/NeuritesWithIsolatedPoints_veryshort.am
nat/tests/testthat/testdata/neuron/MultiplePathsJoinedToMainPath.traces
nat/tests/testthat/testdata/neuron/testneuron_am3d.am
nat/tests/testthat/testdata/neuron/Neurites.am
nat/tests/testthat/testdata/neuron/unfitted.swc
nat/tests/testthat/testdata/neuron/testneuron_am3d_ascii.am.gz
nat/tests/testthat/testdata/neuron/testneuron_lineset.am
nat/tests/testthat/testdata/v3draw
nat/tests/testthat/testdata/v3draw/L1DS1_crop_straight_crop_slice.v3draw
nat/tests/testthat/testdata/v3draw/L1DS1_crop_straight_crop_ch1.nhdr
nat/tests/testthat/testdata/v3draw/L1DS1_crop_straight_crop_ch1.v3draw
nat/tests/testthat/testdata/v3draw/L1DS1_crop_straight_crop.v3draw
nat/tests/testthat/testdata/amira
nat/tests/testthat/testdata/amira/tetrahedron-colbrace.surf
nat/tests/testthat/testdata/amira/JFRC2_MB_CA_L.rds
nat/tests/testthat/testdata/amira/LHMask.Labels.rle.am
nat/tests/testthat/testdata/amira/LHMask.zip.am
nat/tests/testthat/testdata/amira/VerySmallLabelField.nrrd
nat/tests/testthat/testdata/amira/malformed_labels.surf
nat/tests/testthat/testdata/amira/VerySmallLabelField.am
nat/tests/testthat/testdata/amira/tetrahedron_nocol.surf
nat/tests/testthat/testdata/amira/tetrahedron_notriangles.surf
nat/tests/testthat/testdata/amira/tetrahedron.surf
nat/tests/testthat/testdata/amira/landmarks.am
nat/tests/testthat/testdata/amira/tetrahedron_badtrianglenum.surf
nat/tests/testthat/testdata/amira/JFRC2_neuropils_almblh_ascii.surf
nat/tests/testthat/testdata/amira/tetrahedron-colswap.surf
nat/tests/testthat/testdata/amira/AL-a_M.am
nat/tests/testthat/testdata/landmarks
nat/tests/testthat/testdata/landmarks/JFRC2_single.points
nat/tests/testthat/testdata/landmarks/JFRC2.points
nat/tests/testthat/testdata/neuroml2
nat/tests/testthat/testdata/neuroml2/catsmall.nml
nat/tests/testthat/testdata/cmtk
nat/tests/testthat/testdata/cmtk/FCWB_JFRC2_01_warp_level-01.list
nat/tests/testthat/testdata/cmtk/FCWB_JFRC2_01_warp_level-01.list/statistics
nat/tests/testthat/testdata/cmtk/FCWB_JFRC2_01_warp_level-01.list/studylist
nat/tests/testthat/testdata/cmtk/FCWB_JFRC2_01_warp_level-01.list/settings
nat/tests/testthat/testdata/cmtk/FCWB_JFRC2_01_warp_level-01.list/registration.gz
nat/tests/testthat/testdata/cmtk/dofv1.1wshears.list
nat/tests/testthat/testdata/cmtk/dofv1.1wshears.list/studylist
nat/tests/testthat/testdata/cmtk/dofv1.1wshears.list/registration
nat/tests/testthat/testdata/cmtk/FCWB_mirror_level-01.list
nat/tests/testthat/testdata/cmtk/FCWB_mirror_level-01.list/statistics
nat/tests/testthat/testdata/cmtk/FCWB_mirror_level-01.list/studylist
nat/tests/testthat/testdata/cmtk/FCWB_mirror_level-01.list/settings
nat/tests/testthat/testdata/cmtk/FCWB_mirror_level-01.list/registration.gz
nat/tests/testthat/testdata/cmtk/dofv2.4wshears.list
nat/tests/testthat/testdata/cmtk/dofv2.4wshears.list/studylist
nat/tests/testthat/testdata/cmtk/dofv2.4wshears.list/registration
nat/tests/testthat/testdata/selfun_cell07.rds
nat/tests/testthat/testdata/nrrd
nat/tests/testthat/testdata/nrrd/LHMask.nrrd
nat/tests/testthat/testdata/nrrd/LHMask_sum.nrrd
nat/tests/testthat/testdata/nrrd/badenc.nhdr
nat/tests/testthat/testdata/nrrd/JFRC2-444_mask.nrrd
nat/tests/testthat/testdata/nrrd/datafile_listslab.nhdr
nat/tests/testthat/testdata/nrrd/dataforstats.nrrd
nat/tests/testthat/testdata/nrrd/FCWB_2um_mask.nrrd
nat/tests/testthat/testdata/nrrd/badtype.nhdr
nat/tests/testthat/testdata/nrrd/LHMask.nhdr
nat/tests/testthat/testdata/nrrd/datafile_list.nhdr
nat/tests/testthat/testdata/nrrd/FruMARCM-F000002_seg001_03-acrop.nrrd
nat/tests/testthat/testdata/dotprops
nat/tests/testthat/testdata/dotprops/masse
nat/tests/testthat/testdata/dotprops/masse/SAKW13-1_dots4_properties.rda
nat/tests/testthat/testdata/dotprops/masse/SAKW13-1_dots4.rda
nat/tests/testthat/test-neuroml-io.R
nat/tests/testthat/test-neuron-fiji-io.R
nat/tests/testthat/test-im3d.R
nat/tests/test-all.R
nat/NAMESPACE
nat/NEWS
nat/data
nat/data/kcs20.rda
nat/data/MBL.surf.rda
nat/data/Cell07PNs.rda
nat/R
nat/R/cmtk_geometry.R nat/R/cmtk-reformat.R nat/R/cmtk_io.R nat/R/dotprops.R nat/R/nat-package.R nat/R/ndigest.R nat/R/im3d.R nat/R/vtk-io.R nat/R/cmtkreg.R nat/R/neuron-plot.R nat/R/neuronlistfh.R nat/R/xformpoints.R nat/R/nrrd-io.R nat/R/neuron-io-neuroml.R nat/R/neuronlist_interactive_3d.R nat/R/neuronlist.R nat/R/graph-nodes.R nat/R/xformimage.R nat/R/neuron-io-amira.R nat/R/neuron.R nat/R/potential_synapses.R nat/R/dist3D_Segment_to_Segment.R nat/R/neuronlist_sets.R nat/R/pop3d.R nat/R/coordinates.R nat/R/amiralandmarks-io.R nat/R/nat-data.R nat/R/vaa3draw-io.R nat/R/ngraph.R nat/R/hxsurf.R nat/R/amiramesh-io.R nat/R/xform.R nat/R/summary.R nat/R/neuron-io-fiji.R nat/R/seglist.R nat/R/cmtk.R nat/R/neuron-io.R nat/R/reglist.R nat/R/zzz.R
nat/vignettes
nat/vignettes/fig
nat/vignettes/fig/neuronlist-subsets-01.png
nat/vignettes/fig/neuronlist-01.png
nat/vignettes/Installation.Rmd
nat/vignettes/neurons-intro.Rmd
nat/README.md
nat/MD5
nat/build
nat/build/vignette.rds
nat/DESCRIPTION
nat/man
nat/man/prune_strahler.Rd nat/man/fileformats.Rd nat/man/read.neuron.fiji.Rd nat/man/read.vaa3draw.Rd nat/man/threshold.Rd nat/man/cmtk.statistics.Rd nat/man/plot3d.Rd nat/man/seglist2swc.Rd nat/man/c.neuronlist.Rd nat/man/potential_synapses.Rd nat/man/seglengths.Rd nat/man/setdiff.Rd nat/man/origin.Rd nat/man/neuronlist-dataframe-methods.Rd nat/man/im3d-io.Rd nat/man/cmtk.targetvolume.Rd nat/man/remotesync.Rd nat/man/subset.neuron.Rd nat/man/is.vaa3draw.Rd nat/man/imscalebar.Rd nat/man/write.amiramesh.Rd nat/man/read.neuron.Rd nat/man/kcs20.Rd nat/man/union.Rd nat/man/plot3d.dotprops.Rd nat/man/cmtk.call.Rd nat/man/boundingbox.Rd nat/man/as.neuronlist.Rd nat/man/ndigest.Rd nat/man/MBL.surf.Rd nat/man/seglist.Rd nat/man/read.neurons.Rd nat/man/cmtk.extract_affine.Rd nat/man/all.equal.dotprops.Rd nat/man/nopen3d.Rd nat/man/write.nrrd.Rd nat/man/xformpoints.Rd nat/man/projection.Rd nat/man/reglist.Rd nat/man/voxdims.Rd nat/man/smooth_neuron.Rd nat/man/amiratype.Rd nat/man/strahler_order.Rd nat/man/write.cmtkreg.Rd nat/man/read.landmarks.Rd nat/man/is.neuroml.Rd nat/man/materials.Rd nat/man/write.neurons.Rd nat/man/is.neuronlist.Rd nat/man/neuron.Rd nat/man/plot3d.neuron.Rd nat/man/read.cmtk.Rd nat/man/as.mesh3d.Rd nat/man/im3d.Rd nat/man/nlscan.Rd nat/man/cmtkreg.Rd nat/man/scale.neuron.Rd nat/man/mirror.Rd nat/man/clampmax.Rd nat/man/is.im3d.Rd nat/man/amiramesh-io.Rd nat/man/is.fijitraces.Rd nat/man/get-set-neuronlist-data.frame.Rd nat/man/summary.neuron.Rd nat/man/cmtkparams2affmat.Rd nat/man/imslice.Rd nat/man/write.neuron.Rd nat/man/resample.Rd nat/man/write.hxsurf.Rd nat/man/plot3d.hxsurf.Rd nat/man/normalise_swc.Rd nat/man/all.equal.neuron.Rd nat/man/xyzmatrix.Rd nat/man/prune.Rd nat/man/graph.nodes.Rd nat/man/cmtk.reformatx.Rd nat/man/cmtk.bindir.Rd nat/man/find.neuron.Rd nat/man/simplify_reglist.Rd nat/man/read.nrrd.Rd nat/man/cmtk.mat2dof.Rd nat/man/write.vtk.Rd nat/man/subset.hxsurf.Rd nat/man/as.im3d.Rd nat/man/xform.Rd nat/man/dotprops.Rd nat/man/plot.neuron.Rd nat/man/affmat2cmtkparams.Rd nat/man/cmtk.version.Rd nat/man/is.nrrd.Rd nat/man/coord2ind.Rd nat/man/imexpand.grid.Rd nat/man/plot.neuronlist.Rd nat/man/ngraph.Rd nat/man/neuronlist.Rd nat/man/nlapply.Rd nat/man/pan3d.Rd nat/man/sub2ind.Rd nat/man/Cell07PNs.Rd nat/man/ind2coord.Rd nat/man/is.swc.Rd nat/man/read.morphml.Rd nat/man/subset.dotprops.Rd nat/man/mask.Rd nat/man/neuronlistfh.Rd nat/man/intersect.Rd nat/man/pointsinside.Rd nat/man/cmtkreglist.Rd nat/man/cmtk.dof2mat.Rd nat/man/rootpoints.Rd nat/man/unmask.Rd nat/man/spine.Rd nat/man/all.equal.im3d.Rd nat/man/is.amiramesh.Rd nat/man/prune_vertices.Rd nat/man/read.neuron.neuroml.Rd nat/man/plot3d.neuronlist.Rd nat/man/image.im3d.Rd nat/man/read.neuronlistfh.Rd nat/man/npop3d.Rd nat/man/segmentgraph.Rd nat/man/flip.Rd nat/man/sub-.neuronlistfh.Rd nat/man/nat-package.Rd nat/man/read.hxsurf.Rd nat/man/nrrd.voxdims.Rd nat/man/plot3d.boundingbox.Rd nat/man/neuronlist-arithmetic.Rd nat/man/subset.Rd nat/man/xformimage.Rd nat/man/read.cmtkreg.Rd nat/man/write.cmtk.Rd nat/man/find.soma.Rd nat/man/write.neuronlistfh.Rd nat/man/neuron-arithmetic.Rd nat/man/read.neuron.swc.Rd nat/man/subset.neuronlist.Rd nat/man/as.neuronlist.neuronlistfh.Rd nat/man/dotprops-arithmetic.Rd nat/man/im3d-coords.Rd

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