# Integrated Stratigraphy

## Documentation for package ‘StratigrapheR’ version 1.3.1

- DESCRIPTION file.
- Package NEWS.

## Help Pages

A B C D E F G H I L M N O P R S T W Y Z

## -- A --

are.lim.distinct | Create / Check / Manipulate lim objects
are.lim.nonadjacent | Create / Check / Manipulate lim objects
are.lim.nonunique | Create / Check / Manipulate lim objects
are.lim.ordered | Create / Check / Manipulate lim objects
as.lim | Create / Check / Manipulate lim objects

## -- B --

bed.example | Data for examples
bedtext | Writes the names of the beds in a litholog
blackSet | Sets the plot environment to draw a long vertical data set
boundary.example | Data for examples

## -- C --

casing | Finds values in a vector directly above and below a number
centersvg | Draws a pointsvg object around a given point
centresvg | Draws a pointsvg object around a given point
changejoint | Change the dimensions of bedding joints
changesvg | Changes a pointsvg object
chron.example | Data for examples
clipsvg | Clips a standardised pointsvg object into a given frame
collection | Create a list of symbols
collections | Collections of symbols
convert | Converts x values having an index into n values defined by the same y index
convertAxis | Converts the axis following a given formula

## -- D --

dipfix | Fix Dip
divisor | Greatest Common Rational Divisor

## -- E --

earinc | Recalculates inclination in equal area projection
earnet | Draws an equal area stereonet
earplanes | Draws planes on an equal area stereonet
earpoints | Draws points on an equal area stereonet
encase | Encases two numbers between multiples of a given number
encircle | Draws circles
enlarge | Expands the TRUE values of a T/F vector to their nth neighbours
every_nth | Suppresses every n th element of a vector
example.ammonite | Data for examples
example.ammonite.svg | Data for examples
example.belemnite | Data for examples
example.breccia | Data for examples
example.HB2000.svg | Data for examples
example.lense | Data for examples
example.liquefaction | Data for examples

## -- F --

flip.lim | Inverts the intervals
fmean | Fischer mean
fmod | Universal remainder function
folder | Creates a new folder where wanted if it does not exist yet
formFunction | Converts a formula into a function
fossil.example | Data for examples
framesvg | Draws a standardised pointsvg object into a given frame

## -- G --

greySet | Sets the plot environment to draw a long vertical data set

## -- H --

homogenise | Homogenise a list
homogenize | Homogenise a list

## -- I --

ignore | Ignores useless objects
in.lim | Finds the intervals encompassing values
in.window | Irregular windowing
incfix | Fix Inclination
infobar | Draws rectangles with text in them
irreg.example | Data for examples
is.clockwise | Identify whether the points of a polygon are ordered clockwise
is.collection | Create a list of symbols
is.divisor | Greatest Common Rational Divisor
is.joint | Check (bedding) joint objects
is.lim | Create / Check / Manipulate lim objects
is.litholog | Create/check lithologs
is.pointsvg | Converts line, rect, polygon and polyline class SVG objects into data frames

## -- L --

leftlog | Finds bed intervals in a "litholog()"-like data frame
litholog | Create/check lithologs
log.loop.tex | Data for examples

## -- M --

memento | Remembers and outputs the result of a slow function
merge_list | Method for merging lists by name
mid.lim | Provides mid-points intervals in an ordered vector
minorAxis | Adds an axis with minor ticks to a plot
minorAxisTicks | Compute Pretty Minor Axis Tick Scales
multigons | Draws several polygons
multilines | Draws several lines

## -- N --

neatPick | Interactive user modification of the arguments of a repeated function
neatPicked | Runs neatPick without user input
nlegend | New legend element
noise_emd | Data for examples
nset | Find indexes for n identical elements

## -- O --

octapos | Identify points in a polygon in reference to an octagon
octashift | Shifts the order of polygon points
order.lim | Create / Check / Manipulate lim objects
oufti99 | Collections of symbols
outliner | Find the points of a litholog that are along a given vertical line

## -- P --

pdfDisplay | Generates PDF and SVG figures
pkgfind | Find a specific pattern in the code of functions in a package
placesvg | Draws a pointsvg object
planepoints | Describes planes by points
plot_collection | Create a list of symbols
plot_lim | Visualize lim objects
pointsvg | Converts line, rect, polygon and polyline class SVG objects into data frames
profiler | Extract the profile of a litholog
proxy.example | Data for examples
proxy.example.litho | Data for examples

## -- R --

rebound | Simplifies boundary indicators for lim objects
repitch | Converts pitch into declination and inclination
reposition | Core correction
restore | Plane correction
rmatrix | Rotation matrix
rotate | Spherical rotation around fixed axes

## -- S --

seq_log | Gives the repartition of values for a log 10 scale between a given interval
seq_mult | Sequence ordered by multiple
shift | Circular shift
simp.lim | Joins and orders adjacent or overlapping lim objects of same ID
sinpoint | Gives a table of equally sampled points following a sinusoidal function
strat.mean | Extrapolate and intrapolate tie points
strat.repair | Remove instantaneous deposits and add thickness in hiatuses
strat.var | Compute the realtive thickness variations of sections
StratigrapheR | StratigrapheR: integrated stratigraphy for R
StratigrapheR.examples | Data for examples
symbology | Draws the symbols of a collection

## -- T --

tie.lim | Discretises lim objects
tie.points.example | Data for examples
trace.lim | Visualize lim objects
transphere | Convertion between declinaison/inclination/intensity and cartesian coordinates

## -- W --

weld | Combines segments with "litholog()"-like data frame
weldjoint | Changes boundaries segments in basic lithologs
weldlog | Changes boundaries segments in basic lithologs
weldprofile | Changes profiles in basic lithologs
whiteSet | Sets the plot environment to draw a long data set

## -- Y --

ylink | Draws connection lines to connect two points in y

## -- Z --

zeq_example | Data for examples
zijderveld | Draws a Zijderveld plot