A B C D E F G H I L M N O P Q R S T U W Y Z
CHNOSZ-package | Chemical Thermodynamics and Activity Diagrams |
A.ionization | Functions to Work With Chemical Affinities |
aa2eos | Amino Acid Compositions of Proteins |
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 |
allparents | Extract Data from NCBI Taxonomy Files |
aminoacids | Functions to Work with Sequence Data |
anim | Functions to Make Animations |
anim.carboxylase | Functions to Make Animations |
anim.plasma | Functions to Make Animations |
anim.TCA | Functions to Make Animations |
apc | Mass Transfer Calculations |
as.chemical.formula | Functions to Work with Chemical Formulas |
axis.label | Functions to Express Chemical Formulas and Properties |
balance | Equilibrium Chemical Activities of Species |
basis | Define Basis Species |
basis.elements | Swap Basis Species |
basis.logact | Swap Basis Species |
browse.refs | Functions to Work with the Thermodynamic Database |
buffer | Calculating Buffered Chemical Activities |
buffers | Thermodynamic Database and System Definition |
c2s | Functions to Manipulate Character Objects |
caller.name | Functions for Various Programming Tasks |
can.be.numeric | Functions to Manipulate Character Objects |
cgl | Equations of State |
check.obigt | Functions to Work with the Thermodynamic Database |
checkEOS | Functions to Work with the Thermodynamic Database |
checkGHS | Functions to Work with the Thermodynamic Database |
convert | Functions to Convert Units |
count.aa | Functions for Reading FASTA Files and Downloading from UniProt |
count.charge | Parse Chemical Formulas |
count.elements | Parse Chemical Formulas |
count.formulas | Parse Chemical Formulas |
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 |
DGinf | Objective Functions |
DGmix | Objective Functions |
DGtr | Objective Functions |
diagram | Equilibrium Chemical Activity Diagrams |
dimSums | Functions to Work with Multidimensional Arrays |
dPdTtr | Functions for Miscellaneous Tasks |
draw.transfer | Mass Transfer Calculations |
E.units | Functions to Convert Units |
element | Thermodynamic Database and System Definition |
element.mu | Swap Basis Species |
element.potentials | Gibbs Energy Minimization by Steepest Descent |
energy | Functions to Work With Chemical Affinities |
energy.args | Functions to Work With Chemical Affinities |
entropy | Functions to Work with Chemical Formulas |
envert | Functions to Convert Units |
eos.args | Functions for Processing Argument Lists |
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 |
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 |
extremes | Plots and Optima of Objective Functions |
feldspar | Mass Transfer Calculations |
find.tp | Equilibrium Chemical Activity Diagrams |
findit | Gridded Search to Optimize Objective Functions |
get.formula | Functions to Work with Chemical Formulas |
get.objfun | Objective Functions |
getnames | Extract Data from NCBI Taxonomy Files |
getnodes | Extract Data from NCBI Taxonomy Files |
getrank | Extract Data from NCBI Taxonomy Files |
gfun | Equations of State |
GHS | Functions to Work with Chemical Formulas |
grep.file | Functions for Reading FASTA Files and Downloading from UniProt |
group.formulas | Summaries of Thermodynamic Properties of Proteins |
groups | Thermodynamic Database and System Definition |
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 |
IAPWS95.idealgas | Properties of Water from IAPWS-95 |
IAPWS95.residual | Properties of Water from IAPWS-95 |
ibasis | Swap Basis Species |
id.blast | Functions to Work with BLAST Output Files |
info | Search the Thermodynamic Database |
info.approx | Search the Thermodynamic Database |
info.character | Search the Thermodynamic Database |
info.numeric | Search the Thermodynamic Database |
info.text | Search the Thermodynamic Database |
invertible.combs | Functions for Various Matrix Operations |
ionize.aa | Properties of Ionization of Proteins |
ip2aa | Amino Acid Compositions of Proteins |
iprotein | Amino Acid Compositions 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 |
list2array | Functions to Work with Multidimensional Arrays |
logact | Objective Functions |
lsub | Functions to Work with Lists |
lsum | Functions to Work with Lists |
makeup | Parse Chemical Formulas |
mass | Functions to Work with Chemical Formulas |
mod.basis | Define Basis Species |
mod.buffer | Calculating Buffered Chemical Activities |
mod.obigt | Functions to Work with the Thermodynamic Database |
more.aa | Proteins from Model Organisms |
mosaic | Chemical Affinities with Changing Basis Species |
MP90.cp | Summaries of Thermodynamic Properties of Proteins |
msgout | Functions for Various Programming Tasks |
mtitle | Functions to Create and Modify Plots |
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 Definition |
obigt2eos | Functions to Work with the Thermodynamic Database |
objective | Objective Functions |
opt | Thermodynamic Database and System Definition |
optimal.index | Plots and Optima of Objective Functions |
outvert | Functions to Convert Units |
P.units | Functions to Convert Units |
palply | Functions for Various Programming Tasks |
parent | Extract Data from NCBI Taxonomy Files |
pearson | Objective Functions |
plot_findit | Gridded Search to Optimize Objective Functions |
pprod | Functions to Work with Lists |
preset.basis | Define Basis Species |
preset.logact | Define Basis Species |
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 |
put.basis | Define Basis Species |
qqr | Objective Functions |
read.aa | Amino Acid Compositions of Proteins |
read.blast | Functions to Work with BLAST Output Files |
read.expr | Experimental Data for Protein Abundances and Localizations |
read.fasta | Functions for Reading FASTA Files and Downloading from UniProt |
refs | Thermodynamic Database and System Definition |
residualsplot | Functions to Create and Modify Plots |
revisit | Plots and Optima of Objective Functions |
RH2obigt | Functions to Work with the Thermodynamic Database |
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 |
s2c | Functions to Manipulate Character Objects |
sciname | Extract Data from NCBI Taxonomy Files |
SD | Objective Functions |
seq2aa | Amino Acid Compositions of Proteins |
shannon | Objective Functions |
sideeffects | Side effects of functions in CHNOSZ |
slice | Functions to Work with Multidimensional Arrays |
slice.affinity | Functions to Work with Multidimensional Arrays |
spearman | Objective Functions |
species | Species of Interest |
species.basis | Species of Interest |
state.args | Functions for Processing Argument Lists |
stress | Experimental Data for Protein Abundances and Localizations |
strip | Equilibrium Chemical Activity Diagrams |
subcrt | Properties of Species and Reactions |
swap.basis | Swap Basis Species |
T.units | Functions to Convert Units |
taxonomy | Extract Data from NCBI Taxonomy Files |
thermo | Thermodynamic Database and System Definition |
thermo.axis | Functions to Create and Modify Plots |
thermo.plot.new | Functions to Create and Modify Plots |
today | Functions to Work with the Thermodynamic Database |
TP.args | Functions for Processing Argument Lists |
transfer | Mass Transfer Calculations |
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.affinity | Functions to Work With Chemical Affinities |
util.args | Functions for Processing Argument Lists |
util.array | Functions to Work with Multidimensional Arrays |
util.blast | Functions to Work with BLAST Output Files |
util.character | Functions to Manipulate Character Objects |
util.data | Functions to Work with the Thermodynamic Database |
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.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.program | Functions for Various Programming Tasks |
util.seq | Functions to Work with Sequence Data |
util.units | Functions to Convert Units |
util.water | Functions for Properties of Water and Steam |
water | Properties of Water |
water.AW90 | Functions for Properties of Water and Steam |
water.IAPWS95 | Properties of Water |
water.lines | Functions to Create and Modify Plots |
water.props | Properties of Water |
water.SUPCRT92 | Properties of Water |
which.balance | Functions for Miscellaneous Tasks |
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 |
yeastgfp | Experimental Data for Protein Abundances and Localizations |
ZC | Functions to Work with Chemical Formulas |