Estimate and Manipulate Age-Depth Models

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Documentation for package ‘admtools’ version 0.6.0

• DESCRIPTION file.
• User guides, package vignettes and other documentation.
• Package NEWS.

Help Pages

add_adm_to_multiadm	add adm object ot multiadm object
adm_to_ddc	construct depth-depth curve from age-depth models
anchor	anchor age-depth model
CarboCATLite_data	Example data from CarboCATLite
condensation	condensation with height
condensation_fun	condensation function
flip_ddc	reverse direction of depth-depth curve
flux_const	constant deterministic tracer flux
flux_linear	linear deterministic tracer flux
flux_quad	quadratic deterministic tracer flux
get_completeness	Determine stratigraphic (in)completeness
get_data_from_eTimeOpt	extract data from eTimeOpt results
get_height	determine stratigraphic height deposited at specific time
get_hiat_duration	extract hiatus duration
get_hiat_list	extract hiatus info
get_hiat_no	get no. of hiatuses
get_hiat_pos	get hiatus positions
get_incompleteness	Determine stratigraphic (in)completeness
get_L_tp	get height/length tie point
get_L_unit	extract length unit
get_L_units	extract length units
get_section_names	get section names from depth-depth curve
get_time	Determine times based on age-depth model
get_total_duration	Total duration covered
get_total_thickness	get total thickness
get_total_thicknesses	get thicknesses of sections from depth-depth curves
get_T_tp	extract time tie points
get_T_unit	extract Time unit
is_adm	Is an adm object a valid age-depth model
is_destructive	Is deposition destructive?
is_multiadm	is valid multiadm object?
is_sac	is valid sac objects
L_axis_lab	plot height axis label
make_legend	plot legend
max_height	get highest stratigraphic tie point
max_time	last time tie point
mean_adm	get mean ADM
median_adm	get median ADM
merge_adm_to_multiadm	combine multiple adm ojects into multiadm object
merge_multiadm	merge multiple multiadm objects
min_height	get lowest stratigraphic tie point
min_time	first time tie point
plot.adm	plotting adm objects
plot.ddc	plot depth-depth curve
plot.multiadm	plot multiadm object
plot.sac	plot sediment accumulation curve
plot.stratlist	plot strat list
plot.timelist	plot time lists
plot_condensation	plot condensation in height
plot_erosive_intervals	mark erosive time intervals
plot_sed_rate_l	plot sed. rate in height
plot_sed_rate_t	plot sedimentation rate in time
quantile_adm	get quantile ADM
rev_dir	reverse direction of time/depth axis
sac_to_adm	turn sed. acc curve into adm
sedrate_to_multiadm	Estimate age-depth model from sedimentation rates & tie points
sed_rate_from_matrix	make sed rate gen from matrix
sed_rate_gen_from_bounds	seg rate gen from upper/lower bounds
sed_rate_gen_gamma	sed. rate gen based on gamma distribution
sed_rate_l	sedimentation rate in stratigraphic height
sed_rate_l_fun	sed rate in height function
sed_rate_t	sedimentation rate in time domain
sed_rate_t_fun	sedimentation rate function
set_L_unit	set length units
set_L_units	set length units
set_section_names	set section names for depth-depth curves
set_T_unit	set time units
split_multiadm	split multiadm objects into adm
strat_cont_gen_from_tracer	proxy values in strat domain
strat_cont_to_multiadm	estimate age-depth model from tracer
strat_to_time	transform objects from strat. to time domain
strat_to_time.fossils	transform 'fossils' object from 'FossilSim' between time and strat domain
strat_to_time.list	transform list from height to time domain
strat_to_time.numeric	transform numeric vectors from height to time domain
strat_to_time.phylo	transform phylo object
strat_to_time.taxonomy	transform taxonomy object from strat to time domain
summary.adm	summary of age-depth model
summary.ddc	summary of depth-depth curve
summary.multiadm	summary of age-depth model
summary.sac	summary of sediment accumulation curve
timetree	example time tree
time_to_strat	transform objects from time domain to strat. domain
time_to_strat.fossils	transform 'fossils' from FossilSim from time to strat domain
time_to_strat.list	transform list from time to height domain
time_to_strat.numeric	transform vectors from time to height domain
time_to_strat.phylo	transform phylo object
time_to_strat.taxonomy	transform 'taxomony' from time to strat domain
tp_height_det	deterministic tie points height domain
tp_time_det	deterministic tie points in time domain
tp_time_floating_scale	tie points for floating time scale
tp_time_norm	time tie points with normal distribution
tp_to_adm	Construct age-depth model from tie points
tp_to_ddc	construct depth-depth curve from coeval heights
tp_to_sac	define sed. acc. curve
T_axis_lab	plot time axis label