# Groupwise Statistics, LSmeans, Linear Contrasts, Utilities

## Documentation for package ‘doBy’ version 4.6-2

- DESCRIPTION file.
- User guides, package vignettes and other documentation.

## Help Pages

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

## -- A --

aggregate_linest_list | Linear estimates matrix

## -- B --

beets | beets data
breastcancer | Gene expression signatures for p53 mutation status in 250 breast cancer samples
budworm | budworm data
by-lapply | Formula based version of lapply.
by-order | Ordering (sorting) rows of a data frame
by-sample | Sampling from a data frame
by-split | Split a data frame
by-subset | Finds subsets of a dataframe which is split by variables in a formula.
by-summary | Function to calculate groupwise summary statistics
by-transform | Function to make groupwise transformations

## -- C --

carcass | Lean meat contents of 344 pig carcasses
carcassall | Lean meat contents of 344 pig carcasses
codstom | Diet of Atlantic cod in the Gulf of St. Lawrence (Canada)
coef.esticon_class | Contrasts for lm, glm, lme, and geeglm objects
coef.linest_class | Compute linear estimates
confint.linest_class | Compute linear estimates
crimeRate | crimeRate

## -- D --

data-beets | beets data
data-breastcancer | Gene expression signatures for p53 mutation status in 250 breast cancer samples
data-budworm | budworm data
data-carcass | Lean meat contents of 344 pig carcasses
data-codstom | Diet of Atlantic cod in the Gulf of St. Lawrence (Canada)
data-crimeRate | crimeRate
data-dietox | Growth curves of pigs in a 3x3 factorial experiment
data-haldCement | Heat development in cement under hardening.
data-milkman | Milk yield data for manually milked cows.
data-NIRmilk | NIRmilk
data-potatoes | Weight and size of 20 potatoes
descStat | Computing simple descriptive statistics of a numeric vector.
dietox | Growth curves of pigs in a 3x3 factorial experiment

## -- E --

esticon | Contrasts for lm, glm, lme, and geeglm objects
esticon.coxph | Contrasts for lm, glm, lme, and geeglm objects
esticon.geeglm | Contrasts for lm, glm, lme, and geeglm objects
esticon.glm | Contrasts for lm, glm, lme, and geeglm objects
esticon.gls | Contrasts for lm, glm, lme, and geeglm objects
esticon.lm | Contrasts for lm, glm, lme, and geeglm objects
esticon.lme | Contrasts for lm, glm, lme, and geeglm objects
esticon.mer | Contrasts for lm, glm, lme, and geeglm objects
esticon.merMod | Contrasts for lm, glm, lme, and geeglm objects

## -- F --

fatacid | Fish oil in pig food
firstlastobs | Locate the index of the first/last unique value
firstobs | Locate the index of the first/last unique value
firstobs.default | Locate the index of the first/last unique value
firstobs.formula | Locate the index of the first/last unique value

## -- G --

get_contrasts | Auxillary functions for computing lsmeans, contrasts etc
get_contrasts.default | Auxillary functions for computing lsmeans, contrasts etc
get_contrasts.merMod | Auxillary functions for computing lsmeans, contrasts etc
get_linest_list | Linear estimates matrix
get_vartypes | Auxillary functions for computing lsmeans, contrasts etc
get_X | Auxillary functions for computing lsmeans, contrasts etc
get_X.default | Auxillary functions for computing lsmeans, contrasts etc
get_X.merMod | Auxillary functions for computing lsmeans, contrasts etc
get_xlevels | Auxillary functions for computing lsmeans, contrasts etc
get_xlevels.default | Auxillary functions for computing lsmeans, contrasts etc
get_xlevels.mer | Auxillary functions for computing lsmeans, contrasts etc
get_xlevels.merMod | Auxillary functions for computing lsmeans, contrasts etc

## -- H --

haldCement | Heat development in cement under hardening.

## -- I --

is-estimable | Determines if contrasts are estimable.
is_estimable | Determines if contrasts are estimable.

## -- L --

lapplyBy | Formula based version of lapply.
lastobs | Locate the index of the first/last unique value
lastobs.default | Locate the index of the first/last unique value
lastobs.formula | Locate the index of the first/last unique value
LE_matrix | Linear estimates matrix
LE_matrix.default | Linear estimates matrix
linest | Compute linear estimates
linest-get | Auxillary functions for computing lsmeans, contrasts etc
linest-matrix | Linear estimates matrix
linest.default | Compute linear estimates
linest.geeglm | Compute linear estimates
linest.glm | Compute linear estimates
linest.lm | Compute linear estimates
linest.lmerMod | Compute linear estimates
linest.merMod | Compute linear estimates
ls-means | Compute LS-means (aka population means or marginal means)
LSmeans | Compute LS-means (aka population means or marginal means)
LSmeans.default | Compute LS-means (aka population means or marginal means)
LSmeans.lmerMod | Compute LS-means (aka population means or marginal means)

## -- M --

milkman | Milk yield data for manually milked cows.

## -- N --

NIRmilk | NIRmilk
null-basis | Finds the basis of the (right) null space.
null_basis | Finds the basis of the (right) null space.

## -- O --

orderBy | Ordering (sorting) rows of a data frame

## -- P --

parseGroupFormula | Extract components from a formula with "conditioning bar"
popMeans | Compute LS-means (aka population means or marginal means)
popMeans.default | Compute LS-means (aka population means or marginal means)
popMeans.lmerMod | Compute LS-means (aka population means or marginal means)
potatoes | Weight and size of 20 potatoes

## -- R --

recodeVar | Recode values of a vector
renameCol | Rename columns in a matrix or a dataframe.

## -- S --

sampleBy | Sampling from a data frame
set_covariate_val | Auxillary functions for computing lsmeans, contrasts etc
set_xlevels | Auxillary functions for computing lsmeans, contrasts etc
splitBy | Split a data frame
subSeq | Find sub-sequences of identical elements in a vector.
subsetBy | Finds subsets of a dataframe which is split by variables in a formula.
summary.esticon_class | Compute linear estimates
summary.linest_class | Compute linear estimates
summaryBy | Function to calculate groupwise summary statistics

## -- T --

timeSinceEvent | Calculate "time since event" in a vector.
transformBy | Function to make groupwise transformations

## -- W --

which.maxn | Where are the n largest or n smallest elements in a numeric vector ?
which.minn | Where are the n largest or n smallest elements in a numeric vector ?