These functions provide a wide-range of general utility for a variety of data types. They were developed by the FIESTA development team and solve many general and specific problems for data analysis in R.
DBvars.default(
istree = FALSE,
isseed = FALSE,
isveg = FALSE,
isgrm = FALSE,
isdwm = FALSE,
issubp = FALSE,
regionVars = FALSE,
plotgeom = FALSE,
regionVarsRS = "RMRS",
iscwd = FALSE
)DBgetfn(
tab,
invtype,
outfn.pre,
stabbrlst = NULL,
evalid = NULL,
qry = FALSE,
othertxt = NULL,
outfn.date = FALSE,
addslash = FALSE,
ext = "csv",
outfolder = NULL,
overwrite = FALSE
)
getspconddat(
cond = NULL,
ACTUALcond = NULL,
cuniqueid = "PLT_CN",
condid1 = FALSE,
ACI = FALSE
)
getpfromqry(
dsn = NULL,
evalid = NULL,
plotCur = TRUE,
pjoinid,
varCur = "MEASYEAR",
Endyr = NULL,
invyrs = NULL,
allyrs = FALSE,
SCHEMA. = NULL,
subcycle99 = NULL,
designcd1 = FALSE,
intensity1 = NULL,
popSURVEY = FALSE,
chk = FALSE,
Type = "VOL",
syntax = "sql",
plotnm = "plot",
ppsanm = "pop_plot_stratum_assgn",
ppsaid = "PLT_CN",
surveynm = "survey",
plotobj = NULL,
dbconn = NULL,
dbconnopen = TRUE
)
getpwithqry(
dsn = NULL,
evalid = NULL,
states = NULL,
pjoinid,
plotCur = FALSE,
varCur = "MEASYEAR",
Endyr = NULL,
invyrs = NULL,
measyears = NULL,
allyrs = FALSE,
SCHEMA. = NULL,
invtype = "ANNUAL",
subcycle99 = FALSE,
designcd1 = FALSE,
intensity = NULL,
popSURVEY = FALSE,
chk = FALSE,
Type = "VOL",
syntax = "sql",
plotnm = "plot",
ppsanm = "pop_plot_stratum_assgn",
ppsaid = "PLT_CN",
surveynm = "survey",
PLOTdf = NULL,
pltflds = NULL,
POP_PLOT_STRATUM_ASSGNdf = NULL,
ppsaflds = NULL,
pvars = NULL,
dbconn = NULL,
dbconnopen = TRUE,
withqry2 = FALSE
)
getEvalid.ppsa(
ppsa,
states = NULL,
evalAll = FALSE,
evalCur = FALSE,
evalEndyr = NULL,
evalType = "VOL"
)
getPlotCur(
pltx,
Endyr = NULL,
varCur = "MEASYEAR",
Endyr.filter = NULL,
designcd1 = TRUE
)
gui_filterdf(df, byname = TRUE)
DBgetbyids(dbconn, ids, layernm, layerid = "PLT_CN")
DBcreateSQLite(
SQLitefn = NULL,
gpkg = FALSE,
dbconnopen = FALSE,
outfolder = NULL,
outfn.pre = NULL,
outfn.date = FALSE,
overwrite = FALSE,
returnpath = TRUE,
stopifnull = FALSE
)
changeclass(tab, noIDate = TRUE)
customEvalchk(
states,
measCur = TRUE,
measEndyr = NULL,
measEndyr.filter = NULL,
allyrs = FALSE,
invyrs = NULL,
measyrs = NULL,
invyrtab = NULL,
gui = FALSE
)
checkidx(
dbconn,
tbl = NULL,
index_cols = NULL,
datsource = "sqlite",
schema = "FS_FIADB",
dbconnopen = TRUE
)
createidx(
dbconn,
schema = NULL,
tbl,
index_cols,
unique = FALSE,
dbconnopen = TRUE
)
dbclassify(
dbconn,
tabnm,
classcol,
cutbreaks,
cutlabels,
classnm = NULL,
overwrite = TRUE,
NAto0 = FALSE,
dbconnopen = TRUE,
quiet = FALSE
)
dbclass(
dbconn,
tabnm,
classcol,
classvals,
classlabels,
classnm = NULL,
overwrite = TRUE,
NAto0 = FALSE,
dbconnopen = TRUE,
quiet = FALSE
)
getwithqry(
dsn = NULL,
evalid = NULL,
states = NULL,
pjoinid,
plotCur = FALSE,
varCur = "MEASYEAR",
Endyr = NULL,
invyrs = NULL,
measyears = NULL,
allyrs = FALSE,
SCHEMA. = NULL,
invtype = "ANNUAL",
subcycle99 = FALSE,
designcd1 = FALSE,
intensity1 = FALSE,
popSURVEY = FALSE,
chk = FALSE,
Type = "VOL",
syntax = "sql",
plotnm = "plot",
ppsanm = "pop_plot_stratum_assgn",
ppsaid = "PLT_CN",
surveynm = "survey",
PLOTdf = NULL,
pltflds = NULL,
POP_PLOT_STRATUM_ASSGNdf = NULL,
ppsaflds = NULL,
pvars = NULL,
dbconn = NULL,
dbconnopen = TRUE,
withqry2 = FALSE
)
Ratio2Size(
yn,
y2n = NULL,
yd,
y2d = NULL,
ysum,
dsum,
uniqueid,
esttype,
ratiotype,
stratalut,
RHGlut,
unitvar,
strvar,
domain
)
addCI(x, estnm, senm = NULL, conf.level = c(99, 95, 68), gainloss = FALSE)
change10char(xnms)
check.pltcnt(
pltx,
puniqueid = NULL,
unitlut,
unitvars = NULL,
strvars = NULL,
savedata = FALSE,
outfolder = NULL,
outfn = NULL,
overwrite = FALSE,
outfn.date = TRUE,
outfn.pre = NULL,
minplotnum.unit = 10,
minplotnum.strat = 2,
gui = FALSE,
stopiferror = FALSE,
showwarnings = TRUE
)
RtoSQL(filter, x = NULL)
getext(x)
getoutfn(
outfn,
outfolder = NULL,
outfn.pre = NULL,
outfn.date = FALSE,
overwrite = FALSE,
ext = NULL,
baseonly = FALSE,
noext = FALSE,
outfn.default = "outfile",
add = TRUE,
append = FALSE,
gui = FALSE
)
addcommas(vars, ALIAS = NULL, sepchar = ",", quotes = FALSE, paren = FALSE)
pastevars(vars1, vars2, sep = ",")
stopQ()
removecols(x, vars)
DT_NAto0(DT, cols, changeto = 0)
changeNULL(x, xvar, changeto = NULL)
getdups(cx, cuniqueid = "PLT_CN", varnm, fun)
getlistparam(lst)
getnm(xvar, group = FALSE)
capfirst(x, allwords = FALSE)
nbrdecimals(x)
nbrdigits(x)
getfilter(att, val, syntax = "R", quote = FALSE, like = FALSE)
filter2qry(filt, layernm)
wraptitle(x, len = 10)
xtabf(x, y, levels)
recodelut(lut, minvar = "min", maxvar = "max", classvar = "class")
findnm(x, xvect, returnNULL = FALSE)
chkdbtab(dbtablst, tab, stopifnull = FALSE)
int64tochar(df)
messagedf(df)
getSPGRPCD(states)
addFORTYPGRPCD(cond)
date2char(df, col, formatstr = "%Y-%m-%d")
checklevels(x, uniquex, xvar, keepNA = TRUE)
getext(x)
filter2qry(filt, layernm)
recodelut(lut, minvar = "min", maxvar = "max", classvar = "class")
strat.pivot(x, strvar, unitvars, strwtvar = "Prop", strat.levels = NULL)
makedummy(dat, auxlut, predfac)
preds.standardize(plt, aux, prednames)
gregEN.select(
y,
x_sample,
x_pop,
N,
alpha = 0.5,
returncoef = FALSE,
cvfolds = 10
)
preds.select(y, plt, auxlut, prednames, cvfolds = 10)
fileexistsnm(outfolder, basenm, ext)
getEvalid(
states = NULL,
RS = NULL,
evalCur = TRUE,
evalEndyr = NULL,
evalid = NULL,
evalAll = FALSE,
evalType = "VOL",
dbconn = NULL,
schema = NULL,
dbconnopen = FALSE
)
getRefcodes(xvar)
getRefobject(xvar)
getadjfactorDWM(
adj = "samp",
condx,
cuniqueid = "PLT_CN",
condid = "CONDID",
unitlut = NULL,
unitvars = NULL,
strvars = NULL,
unitarea = NULL,
areavar = NULL,
areawt = "SUBP_CONDPROP_UNADJ",
dwmpropvars = NULL
)
getadjfactorGB(
condx = NULL,
treex = NULL,
seedx = NULL,
vcondsppx = NULL,
vcondstrx = NULL,
cond_dwm_calcx = NULL,
tuniqueid = "PLT_CN",
cuniqueid = "PLT_CN",
vuniqueid = "PLT_CN",
duniqueid = "PLT_CN",
condid = "CONDID",
unitlut = NULL,
unitvars = NULL,
strvars = NULL,
unitarea = NULL,
areavar = NULL,
areawt = "CONDPROP_UNADJ",
cvars2keep = NULL,
tpropvars = list(SUBP = "SUBPPROP_UNADJ", MICR = "MICRPROP_UNADJ", MACR =
"MACRPROP_UNADJ")
)
getadjfactorP2VEG(
adj = "samp",
condx,
vcondsppx = NULL,
vcondstrx = NULL,
cuniqueid = "PLT_CN",
vuniqueid = "PLT_CN",
condid = "CONDID",
unitlut = NULL,
unitvars = NULL,
strvars = NULL,
unitarea = NULL,
areavar = NULL,
areawt = "SUBP_CONDPROP_UNADJ",
cvars2keep = NULL
)
getadjfactorPLOT(
condx = NULL,
treex = NULL,
seedx = NULL,
cuniqueid = "PLT_CN",
tuniqueid = "PLT_CN",
condid = "CONDID",
checkNA = TRUE,
areawt = "CONDPROP_UNADJ",
tpropvars = list(SUBP = "SUBPPROP_UNADJ", MICR = "MICRPROP_UNADJ", MACR =
"MACRPROP_UNADJ")
)
getadjfactorVOL(
adj = adj,
condx = NULL,
treex = NULL,
seedx = NULL,
tuniqueid = "PLT_CN",
cuniqueid = "PLT_CN",
condid = "CONDID",
unitlut = NULL,
unitvars = NULL,
strvars = NULL,
unitarea = NULL,
areavar = NULL,
areawt = "CONDPROP_UNADJ",
cvars2keep = NULL,
cpropvars = list(SUBP = "SUBPPROP_UNADJ", MACR = "MACRPROP_UNADJ"),
tpropvars = list(SUBP = "SUBPPROP_UNADJ", MACR = "MACRPROP_UNADJ", MICR =
"MICRPROP_UNADJ"),
keepadjvars = FALSE,
adjvars = NULL
)
getfunnm(x)
getlt10char(dbname)
getpse(
xdat,
esttype = "AREA",
areavar = NULL,
nhatcol = "nhat",
nhatcol.var = "nhat.var",
dhatcol = "dhat",
dhatcol.var = "dhat.var"
)
getrhat(x)
groupClasses(x, minplotnum, nvar, xvar, sumvar = "n.strata", xvarlevels = NULL)
groupEstunit(x, minplotnum)
groupStrata(
x,
minplotnum,
nvar = "n.strata",
strvar = NULL,
stratalevels = NULL
)
groupUnits(
tabest,
domain,
esttype = "AREA",
estncol = "estn",
estncol.var = "estn.var",
estdcol = "estd",
estdcol.var = "estd.var",
covarcol = "covar",
grpfun = sum,
domvar2 = NULL,
rowgrpnm = NULL,
unitvar = NULL,
areavar = NULL,
phototype = "PCT",
photoratio = FALSE,
keepvars = NULL
)
getjoinqry(joinid1, joinid2 = NULL, alias1 = "p.", alias2 = "plta.")
classqry(
classcol,
fromval,
toval,
classnm = NULL,
class. = NULL,
prefixnm = NULL,
fill = NULL
)
classifyqry(
classcol,
cutbreaks,
cutlabels = NULL,
classnm = NULL,
class. = NULL,
prefixnm = NULL,
fill = NULL
)
getcombineqry(lut, unitvars, classcols, fromcols, tocols, tab. = "")
save1tab(
tab,
tab.title = NULL,
outfolder,
allin1 = TRUE,
coltitlerow = TRUE,
coltitle = NULL,
addtitle = TRUE,
rowtotal = TRUE,
rnames = NULL,
outfn = NULL,
addformat = TRUE,
charvars = NULL,
outfn.date = TRUE,
overwrite = FALSE,
cols2format = NULL
)
save2tabs(
tab1,
tab2,
tab1.title,
tab2.title,
outfolder,
coltitlerow = TRUE,
coltitle = NULL,
addtitle = TRUE,
rowtotal = TRUE,
rnames = NULL,
outfn.estpse = NULL,
outfn.date = TRUE,
overwrite = FALSE
)
strat.collapse(
stratacnt,
pltstratx,
minplotnum.unit = 10,
minplotnum.strat = 2,
unitarea,
areavar,
unitvar,
unitvar2 = NULL,
strvar,
getwt = FALSE,
stratcombine = TRUE,
unitcombine = FALSE,
stratalevels = NULL,
vars2combine = NULL,
UNITCD = NULL,
...
)
subpsamp(
cond,
subp_cond,
subplot,
data_dsn = NULL,
subpuniqueid = "PLT_CN",
subpid = "SUBP",
ACI = FALSE,
whereqry = NULL
)
subpsampP2VEG(
plt,
cond,
subp_cond,
subplot,
data_dsn = NULL,
subpuniqueid = "PLT_CN",
subpid = "SUBP",
ACI = FALSE,
whereqry = NULL
)
allin1f(
x,
y,
char.width = NULL,
estnull = "--",
psenull = "--",
estround = NULL,
pseround = NULL
)
crosstabx(
x,
xvar,
estnm,
psenm,
allin1 = FALSE,
char.width = NULL,
estround = NULL,
pseround = NULL,
estnull = "--",
psenull = "--"
)
add0unit(
x,
xvar,
uniquex,
unitvar = NULL,
xvar.add0 = FALSE,
xvar2 = NULL,
uniquex2 = NULL,
xvar2.add0 = FALSE
)
addrowgrp(x, uniquerow, rowvar, rowgrpnm, title.rnames = NULL)
crossxtab(
group.est,
rowvar.est = NULL,
colvar.est = NULL,
total.est = NULL,
rowvar,
colvar,
estnm,
psenm,
estround = NULL,
pseround = NULL,
gtotal = TRUE,
allin1 = FALSE,
rowgrp = FALSE,
rowgrpnm = NULL,
title.rnames = NULL,
estnull = 0,
psenull = "--",
char.width = NULL
)
getdomain()
getestvar()
crossxbyunit(
unit = NULL,
unit_grpest = NULL,
unit_rowest = NULL,
unit_colest = NULL,
unit_totest = NULL,
unitvar,
rowvar,
colvar,
estnm,
psenm,
allin1,
char.width,
estnull,
psenull,
estround = NULL,
pseround = NULL,
rowgrp = NULL,
rowgrpnm = NULL,
title.rnames = NULL,
numunits,
savedata,
addtitle,
returntitle,
outfn.estpse,
title.estpse,
title.est,
title.pse,
title.ref,
outfolder,
outfn.date,
overwrite,
esttype,
phototype,
rnames = NULL,
title.colvar = NULL,
title.unitvar = NULL
)
ptdata2sf(
ptdata,
crs,
coords = c(2, 3),
asSpatial = FALSE,
stringsAsFactors = FALSE
)
sf2ptdata(ptlayer, id_fld = 1, stringsAsFactors = FALSE)
layerIntersection(
layer1,
layer2,
asSpatial = FALSE,
dropLowerDimGeom = TRUE,
stringsAsFactors = FALSE
)
layerUnion(
layer1,
layer2,
asSpatial = FALSE,
dropLowerDimGeom = TRUE,
sfColName = "geometry",
stringsAsFactors = FALSE
)
tabulateIntersections(
layer1,
layer1fld,
layer2,
layer2fld = NULL,
stringsAsFactors = FALSE,
withUnits = FALSE
)
selectByIntersects(
layer1,
layer2,
overlapThreshold = 0,
thresholdAsPct = TRUE,
asSpatial = FALSE,
stringsAsFactors = FALSE
)
layerFromRasterExtent(rasterfile, asSpatial = FALSE)
wtcalc(wtLUT, strvar, acrevar)
wtcalc.unit(wtLUT, strvar, unit, unitvar, acrevar)
Object for internal use by other functions in FIESTAutils or other packages used for USDA Forest Service data analysis.
Tracey S. Frescino, Chris Toney, Grayson W. White
These functions provide a wide-range of general utility for a variety of data types.