rsml: Plant Root System Markup Language (RSML) File Processing

Read and analyse Root System Markup Language (RSML) files, used to store plant root system architecture data. More information can be found at the address <http://rootsystemml.github.io/>.

Author
Guillaume Lobet
Date of publication
2016-01-05 10:18:47
Maintainer
Guillaume Lobet <guillaume.lobet@ulg.ac.be>
License
GPL-2
Version
1.3

View on CRAN

Man pages

addChildToRoot
Add a child root (lateral) to an existing root
addNodeToRoot
Add a node to an existing root
addRootToPlant
Add a root to an existing plant. Returns the plant with the...
anagallis
Root system of a anagallis plant in 3D
coords
Get the coordinates of the root nodes
getInsertionAngle
Compute the insertion angle of the root on its parent
getInsertionPosition
Compute the insertion of the root on its parent
latLength
Compute the length of the lateral root based on the...
length.plant
Compute the length of the root based on the coordinates of...
length.root
Compute the length of the root based on the coordinatres of...
lupin
Root system of a lupin plant in 2D
maize
Root system of a maize plant in 3D
meanInsertionAngle
Compute the mean insertion angle of the children (lateral)...
meanInsertionAnglePlant
Compute the mean insertion angle of all the laterals in the...
meanInterbranch
Compute the mean interbranch distance of the children...
meanInterbranchPlant
Compute the mean interbranch distance of all the primary...
nChild
Get the number of children in a root
nLatRoot
Compute the number of lateral roots in the plant
nNode
Get the number of nodes in a root
node
Node constructor
nPrimRoot
Compute the number of primary roots in the plant
nRoot
Compute the total number of roots in the plant
plant
Plant object, containing a root system, composed of roots
plot.plant
Plot the root system
primLength
Compute the length of the primary root based on the...
print.node
Print the node
print.plant
Print the plant
root
Root constructor
rsmlToList
Import a single RSML file into a List. Work only if the roots...
rsmlToPlant
Import a single RSML file into a Plant object
summary.plant
Summary of the plant
totalLength
Compute the length of the root and its children based on the...
xrange
Compute the xrange of the root
xrangePlant
Compute the xrange of the plant
yrange
Compute the xrange of the root
yrangePlant
Compute the yrange of the plant
zrange
Compute the xrange of the root
zrangePlant
Compute the zrange of the plant

Files in this package

rsml
rsml/inst
rsml/inst/extdata
rsml/inst/extdata/maize.rsml
rsml/inst/extdata/lupin.rsml
rsml/inst/extdata/anagallis.rsml
rsml/NAMESPACE
rsml/data
rsml/data/lupin.rda
rsml/data/anagallis.rda
rsml/data/maize.rda
rsml/R
rsml/R/RSML.R
rsml/R/rsmlToPlant.R
rsml/R/plant_functions.R
rsml/R/node_functions.R
rsml/R/rsmlToList.R
rsml/R/root_functions.R
rsml/MD5
rsml/DESCRIPTION
rsml/man
rsml/man/zrange.Rd
rsml/man/rsmlToList.Rd
rsml/man/length.plant.Rd
rsml/man/totalLength.Rd
rsml/man/nLatRoot.Rd
rsml/man/yrangePlant.Rd
rsml/man/xrange.Rd
rsml/man/yrange.Rd
rsml/man/plot.plant.Rd
rsml/man/rsmlToPlant.Rd
rsml/man/nChild.Rd
rsml/man/nRoot.Rd
rsml/man/nNode.Rd
rsml/man/summary.plant.Rd
rsml/man/length.root.Rd
rsml/man/meanInsertionAngle.Rd
rsml/man/meanInsertionAnglePlant.Rd
rsml/man/meanInterbranch.Rd
rsml/man/coords.Rd
rsml/man/lupin.Rd
rsml/man/primLength.Rd
rsml/man/root.Rd
rsml/man/nPrimRoot.Rd
rsml/man/anagallis.Rd
rsml/man/getInsertionAngle.Rd
rsml/man/getInsertionPosition.Rd
rsml/man/xrangePlant.Rd
rsml/man/maize.Rd
rsml/man/node.Rd
rsml/man/latLength.Rd
rsml/man/plant.Rd
rsml/man/addRootToPlant.Rd
rsml/man/print.node.Rd
rsml/man/zrangePlant.Rd
rsml/man/print.plant.Rd
rsml/man/addNodeToRoot.Rd
rsml/man/addChildToRoot.Rd
rsml/man/meanInterbranchPlant.Rd