A B C D E F G H I L M N O P Q R S T U V W Y Z
CHNOSZ-package | Thermodynamic Calculations and Diagrams for Geochemistry |
aasum | Amino Acid Compositions of Proteins |
add.obigt | Functions to Work with the Thermodynamic Database |
add.protein | Amino Acid Compositions of Proteins |
affinity | Chemical Affinities of Formation Reactions |
AkDi | Equations of State |
allparents | Extract Data from NCBI Taxonomy Files |
aminoacids | Functions to Work with Sequence Data |
as.chemical.formula | Functions to Work with Chemical Formulas |
axis.label | Functions to Express Chemical Formulas and Properties |
basis | Define Basis Species |
basis.elements | Swap Basis Species |
basis.logact | Swap Basis Species |
berman | Thermodynamic Properties of Minerals |
bgamma | Activity Coefficients of Aqueous Species |
buffer | Calculating Buffered Chemical Activities |
calculateDensity | Deep Earth Water (DEW) Model |
calculateEpsilon | Deep Earth Water (DEW) Model |
calculateGibbsOfWater | Deep Earth Water (DEW) Model |
calculateQ | Deep Earth Water (DEW) Model |
cgl | Equations of State |
check.obigt | Functions for Checking Thermodynamic Data |
checkEOS | Functions for Checking Thermodynamic Data |
checkGHS | Functions for Checking Thermodynamic Data |
CHNOSZ | Thermodynamic Database and System Settings |
convert | Functions to Convert Units |
count.aa | Functions for Reading FASTA Files and Downloading from UniProt |
count.elements | Parse Chemical Formulas |
Cp_s_var | Regress Equations-of-State Parameters for Aqueous Species |
CV | Objective Functions |
CVRMSD | Objective Functions |
DDGmix | Objective Functions |
def2gi | Functions to Work with BLAST Output Files |
demos | Run Examples from the Documentation |
describe.basis | Functions to Express Chemical Formulas and Properties |
describe.property | Functions to Express Chemical Formulas and Properties |
describe.reaction | Functions to Express Chemical Formulas and Properties |
DEW | Deep Earth Water (DEW) Model |
DGinf | Objective Functions |
DGmix | Objective Functions |
DGtr | Objective Functions |
diagram | Chemical Activity Diagrams |
dimSums | Functions to Work with Multidimensional Arrays |
dPdTtr | Functions for Miscellaneous Tasks |
dumpdata | Functions for Checking Thermodynamic Data |
E.units | Functions to Convert Units |
element.mu | Swap Basis Species |
element.potentials | Gibbs Energy Minimization by Steepest Descent |
entropy | Functions to Work with Chemical Formulas |
eos | Equations of State |
EOScalc | Regress Equations-of-State Parameters for Aqueous Species |
EOScoeffs | Regress Equations-of-State Parameters for Aqueous Species |
EOSlab | Regress Equations-of-State Parameters for Aqueous Species |
EOSplot | Regress Equations-of-State Parameters for Aqueous Species |
EOSregress | Regress Equations-of-State Parameters for Aqueous Species |
EOSvar | Regress Equations-of-State Parameters for Aqueous Species |
eqdata | Read data from an EQ6 output file |
equil.boltzmann | Equilibrium Chemical Activities of Species |
equil.potentials | Gibbs Energy Minimization by Steepest Descent |
equil.reaction | Equilibrium Chemical Activities of Species |
equilibrate | Equilibrium Chemical Activities of Species |
examples | Run Examples from the Documentation |
expect_maxdiff | Functions for Writing Tests |
expr.property | Functions to Express Chemical Formulas and Properties |
expr.species | Functions to Express Chemical Formulas and Properties |
expr.units | Functions to Express Chemical Formulas and Properties |
extdata | Extra Data |
find.tp | Chemical Activity Diagrams |
findit | Gridded Search to Optimize Objective Functions |
getnames | Extract Data from NCBI Taxonomy Files |
getnodes | Extract Data from NCBI Taxonomy Files |
getrank | Extract Data from NCBI Taxonomy Files |
GHS | Functions to Work with Chemical Formulas |
GHS_Tr | Functions for Miscellaneous Tasks |
group.formulas | Functions for Proteins (Other Calculations) |
guess | Gibbs Energy Minimization by Steepest Descent |
hkf | Equations of State |
i2A | Functions to Work with Chemical Formulas |
IAPWS95 | Properties of Water from IAPWS-95 |
ibasis | Swap Basis Species |
id.blast | Functions to Work with BLAST Output Files |
info | Search the Thermodynamic Database |
invertible.combs | Functions for Various Matrix Operations |
ionize.aa | Properties of Ionization of Proteins |
is.near.equil | Gibbs Energy Minimization by Steepest Descent |
label.figure | Functions to Create and Modify Plots |
label.plot | Functions to Create and Modify Plots |
lex | Functions to Make Legend Text |
list2array | Functions to Work with Multidimensional Arrays |
lNaCl | Functions to Make Legend Text |
logact | Objective Functions |
lP | Functions to Make Legend Text |
lS | Functions to Make Legend Text |
lT | Functions to Make Legend Text |
lTP | Functions to Make Legend Text |
makeup | Parse Chemical Formulas |
mass | Functions to Work with Chemical Formulas |
maxdiff | Functions for Writing Tests |
mod.buffer | Calculating Buffered Chemical Activities |
mod.obigt | Functions to Work with the Thermodynamic Database |
moles | Equilibrium Chemical Activities of Species |
mosaic | Chemical Affinities with Changing Basis Species |
MP90.cp | Functions for Proteins (Other Calculations) |
mtitle | Functions to Create and Modify Plots |
NaCl | Simple NaCl-Water Solution |
nonideal | Activity Coefficients of Aqueous Species |
nucleic.complement | Functions to Work with Sequence Data |
nucleic.formula | Functions to Work with Sequence Data |
obigt | Thermodynamic Database and System Settings |
objective | Objective Functions |
P.units | Functions to Convert Units |
palply | Conditional Parallel Processing |
parent | Extract Data from NCBI Taxonomy Files |
pearson | Objective Functions |
pinfo | Summaries of Thermodynamic Properties of Proteins |
plot_findit | Gridded Search to Optimize Objective Functions |
protein | Examples of Calculations for Proteins |
protein.basis | Summaries of Thermodynamic Properties of Proteins |
protein.equil | Summaries of Thermodynamic Properties of Proteins |
protein.formula | Summaries of Thermodynamic Properties of Proteins |
protein.info | Summaries of Thermodynamic Properties of Proteins |
protein.length | Summaries of Thermodynamic Properties of Proteins |
protein.obigt | Summaries of Thermodynamic Properties of Proteins |
qqr | Objective Functions |
ratlab | Functions to Express Chemical Formulas and Properties |
read.blast | Functions to Work with BLAST Output Files |
read.fasta | Functions for Reading FASTA Files and Downloading from UniProt |
reset | Thermodynamic Database and System Settings |
retrieve | Retrieve Species by Element |
revisit | Plots and Optima of Objective Functions |
RH2obigt | Functions for Checking Thermodynamic Data |
rho.IAPWS95 | Functions for Properties of Water and Steam |
richness | Plots and Optima of Objective Functions |
RMSD | Objective Functions |
run.guess | Gibbs Energy Minimization by Steepest Descent |
run.wjd | Gibbs Energy Minimization by Steepest Descent |
sciname | Extract Data from NCBI Taxonomy Files |
SD | Objective Functions |
seq2aa | Amino Acid Compositions of Proteins |
shannon | Objective Functions |
slice | Functions to Work with Multidimensional Arrays |
slice.affinity | Functions to Work with Multidimensional Arrays |
solubility | Equilibrium Chemical Activities of Species |
spearman | Objective Functions |
species | Species of Interest |
strip | Chemical Activity Diagrams |
subcrt | Properties of Species and Reactions |
swap.basis | Swap Basis Species |
syslab | Functions to Express Chemical Formulas and Properties |
T.units | Functions to Convert Units |
taxonomy | Extract Data from NCBI Taxonomy Files |
thermo | Thermodynamic Database and System Settings |
thermo.axis | Functions to Create and Modify Plots |
thermo.plot.new | Functions to Create and Modify Plots |
thermo.refs | Functions for Checking Thermodynamic Data |
today | Functions to Work with the Thermodynamic Database |
Ttr | Functions for Miscellaneous Tasks |
uniprot.aa | Functions for Reading FASTA Files and Downloading from UniProt |
unitize | Functions for Miscellaneous Tasks |
usrfig | Functions to Create and Modify Plots |
util.array | Functions to Work with Multidimensional Arrays |
util.blast | Functions to Work with BLAST Output Files |
util.data | Functions for Checking Thermodynamic Data |
util.expression | Functions to Express Chemical Formulas and Properties |
util.fasta | Functions for Reading FASTA Files and Downloading from UniProt |
util.formula | Functions to Work with Chemical Formulas |
util.legend | Functions to Make Legend Text |
util.list | Functions to Work with Lists |
util.matrix | Functions for Various Matrix Operations |
util.misc | Functions for Miscellaneous Tasks |
util.plot | Functions to Create and Modify Plots |
util.protein | Functions for Proteins (Other Calculations) |
util.seq | Functions to Work with Sequence Data |
util.test | Functions for Writing Tests |
util.units | Functions to Convert Units |
util.water | Functions for Properties of Water and Steam |
V_s_var | Regress Equations-of-State Parameters for Aqueous Species |
water | Properties of Water |
water.AW90 | Functions for Properties of Water and Steam |
water.DEW | Properties of Water |
water.IAPWS95 | Properties of Water |
water.lines | Functions to Create and Modify Plots |
water.SUPCRT92 | Properties of Water |
which.pmax | Functions to Work with Lists |
wjd | Gibbs Energy Minimization by Steepest Descent |
WP02.auxiliary | Functions for Properties of Water and Steam |
write.blast | Functions to Work with BLAST Output Files |
yeast | Composition, Localization, and Abundances of Proteins in Yeast |
yeast.aa | Composition, Localization, and Abundances of Proteins in Yeast |
yeastgfp | Composition, Localization, and Abundances of Proteins in Yeast |
ZC | Functions to Work with Chemical Formulas |
ZC.col | Functions to Create and Modify Plots |