A B C D E F G H I K L M O P R S T U V W X Y misc
opm.package-package | The opm package |
aggregated | Get aggregated kinetic data |
aggregated-method | Get aggregated kinetic data |
aggregated-methods | Get aggregated kinetic data |
aggr_settings | Get aggregation settings |
aggr_settings-method | Get aggregation settings |
aggr_settings-methods | Get aggregation settings |
anyDuplicated | Determine whether plates are duplicated |
anyDuplicated-method | Determine whether plates are duplicated |
anyDuplicated-methods | Determine whether plates are duplicated |
batch_collect | Collect information from files |
batch_opm_to_yaml | Batch-convert to YAML |
batch_process | Convert infiles to outfiles |
best_cutoff | Determine best cutoff |
best_cutoff-method | Determine best cutoff |
best_cutoff-methods | Determine best cutoff |
borders | Cluster borders |
borders.Ckmeans.1d.dp | Cluster borders |
borders.kmeans | Cluster borders |
borders.kmeanss | Cluster borders |
bracket-method | Select subset |
bracket-methods | Select subset |
c | Combination |
c-method | Combination |
c-methods | Combination |
calinski | Calinski-Harabasz statistics |
calinski.Ckmeans.1d.dp | Calinski-Harabasz statistics |
calinski.kmeans | Calinski-Harabasz statistics |
calinski.kmeanss | Calinski-Harabasz statistics |
ci_plot | Plot point estimates with CIs |
ci_plot-method | Plot point estimates with CIs |
ci_plot-methods | Plot point estimates with CIs |
clean_filenames | Clean file names |
collect_template | Collect metadata template |
collect_template-method | Collect metadata template |
collect_template-methods | Collect metadata template |
contains | Query a list with a list |
contains-method | Query a list with a list |
contains-methods | Query a list with a list |
csv_data | Information from input CSV file |
csv_data-method | Information from input CSV file |
csv_data-methods | Information from input CSV file |
dim | Dimensions |
dim-method | Dimensions |
dim-methods | Dimensions |
discrete | Convert to discrete characters |
discrete-method | Convert to discrete characters |
discrete-methods | Convert to discrete characters |
discretized | Get discretized kinetic data |
discretized-method | Get discretized kinetic data |
discretized-methods | Get discretized kinetic data |
disc_settings | Get discretization settings |
disc_settings-method | Get discretization settings |
disc_settings-methods | Get discretization settings |
do_aggr | Aggregate kinetics using curve-parameter estimation |
do_aggr-method | Aggregate kinetics using curve-parameter estimation |
do_aggr-methods | Aggregate kinetics using curve-parameter estimation |
do_disc | Discretize curve parameters |
do_disc-method | Discretize curve parameters |
do_disc-methods | Discretize curve parameters |
duplicated | Determine duplicated plates |
duplicated-method | Determine duplicated plates |
duplicated-methods | Determine duplicated plates |
explode_dir | Conversion of directory names to file names |
extract | Extract aggregated values |
extract-method | Extract aggregated values |
extract-methods | Extract aggregated values |
extract_columns | Create data frame or vector from metadata |
extract_columns-method | Create data frame or vector from metadata |
extract_columns-methods | Create data frame or vector from metadata |
fast_estimate | Fast curve-parameter estimation |
fast_estimate-method | Fast curve-parameter estimation |
fast_estimate-methods | Fast curve-parameter estimation |
filename | Original input filename |
filename-method | Original input filename |
filename-methods | Original input filename |
file_pattern | File pattern |
find_positions | Identify positions of substrates |
find_positions-method | Identify positions of substrates |
find_positions-methods | Identify positions of substrates |
find_substrate | Identify substrates |
find_substrate-method | Identify substrates |
find_substrate-methods | Identify substrates |
flatten | Flatten measurements from OPM or OPMS objects |
flatten-method | Flatten measurements from OPM or OPMS objects |
flatten-methods | Flatten measurements from OPM or OPMS objects |
gen_iii | Change to Generation III (or other plate type) |
gen_iii-method | Change to Generation III (or other plate type) |
gen_iii-methods | Change to Generation III (or other plate type) |
glob_to_regex | Convert wildcard to regular expression |
glob_to_regex-method | Convert wildcard to regular expression |
glob_to_regex-methods | Convert wildcard to regular expression |
has_aggr | Are aggregated data present? |
has_aggr-method | Are aggregated data present? |
has_aggr-methods | Are aggregated data present? |
has_disc | Are discretized data present? |
has_disc-method | Are discretized data present? |
has_disc-methods | Are discretized data present? |
heat_map | Heat map |
heat_map-method | Heat map |
heat_map-methods | Heat map |
hist.Ckmeans.1d.dp | Cluster borders |
hist.kmeans | Cluster borders |
hist.kmeanss | Cluster borders |
hours | Overall measuring hours |
hours-method | Overall measuring hours |
hours-methods | Overall measuring hours |
html_args | Default HTML formatting arguments |
include_metadata | Add metadata (from file or data frame) |
include_metadata-method | Add metadata (from file or data frame) |
include_metadata-methods | Add metadata (from file or data frame) |
infix.k | Search in metadata keys |
infix.k-method | Search in metadata keys |
infix.k-methods | Search in metadata keys |
infix.largek | Search in metadata keys |
infix.largek-method | Search in metadata keys |
infix.largek-methods | Search in metadata keys |
infix.largeq | Query metadata (strict version) |
infix.largeq-method | Query metadata (strict version) |
infix.largeq-methods | Query metadata (strict version) |
infix.q | Query metadata (non-exact version) |
infix.q-method | Query metadata (non-exact version) |
infix.q-methods | Query metadata (non-exact version) |
kubrick | Stanley Kubrick |
length | OPMS length (number of plates) |
length-method | OPMS length (number of plates) |
length-methods | OPMS length (number of plates) |
level_plot | Levelplot |
level_plot-method | Levelplot |
level_plot-methods | Levelplot |
listing | Create textual listing |
listing-method | Create textual listing |
listing-methods | Create textual listing |
map_metadata | Map metadata |
map_metadata-method | Map metadata |
map_metadata-methods | Map metadata |
map_names | Map names |
map_names-method | Map names |
map_names-methods | Map names |
map_values | Map values |
map_values-method | Map values |
map_values-methods | Map values |
max | Maximum |
max-method | Maximum |
max-methods | Maximum |
measurements | Stored measurements |
measurements-method | Stored measurements |
measurements-methods | Stored measurements |
merge | Merge plates |
merge-method | Merge plates |
merge-methods | Merge plates |
metadata | Get metadata |
metadata-method | Get metadata |
metadata-methods | Get metadata |
metadata.set | Replace metadata |
metadata.set-method | Replace metadata |
metadata.set-methods | Replace metadata |
metadata<- | Replace metadata |
metadata<--method | Replace metadata |
metadata_chars | Get metadata characters |
metadata_chars-method | Get metadata characters |
metadata_chars-methods | Get metadata characters |
minmax | Smallest maximum |
minmax-method | Smallest maximum |
minmax-methods | Smallest maximum |
MOA | MOA class |
MOA-class | MOA class |
oapply | Apply method for OPMS objects |
oapply-method | Apply method for OPMS objects |
oapply-methods | Apply method for OPMS objects |
OPM | OPM class |
OPM-class | OPM class |
opm.package | The opm package |
OPMA | OPMA class |
OPMA-class | OPMA class |
OPMD | OPMD class |
OPMD-class | OPMD class |
OPMS | OPMS class |
opms | OPMS constructor |
OPMS-class | OPMS class |
OPMX | OPMX class |
OPMX-class | OPMX class |
opm_files | Opm files |
opm_opt | OPM options |
opm_opt-method | OPM options |
opm_opt-methods | OPM options |
param_names | Names of curve parameters |
phylo_data | Export phylogenetic data |
phylo_data-method | Export phylogenetic data |
phylo_data-methods | Export phylogenetic data |
plates | Get available plates |
plates-method | Get available plates |
plates-methods | Get available plates |
plate_type | Plate type used or normalized |
plate_type-method | Plate type used or normalized |
plate_type-methods | Plate type used or normalized |
plot.kmeanss | Calinski-Harabasz statistics |
plus | Addition |
plus-method | Addition |
plus-methods | Addition |
position | Position of a plate |
position-method | Position of a plate |
position-methods | Position of a plate |
radial_plot | Radial plot |
radial_plot-method | Radial plot |
radial_plot-methods | Radial plot |
read_opm | Read multiple PM files at once |
read_single_opm | Read single PM file |
rep | Repeat OPMS objects |
rep-method | Repeat OPMS objects |
rep-methods | Repeat OPMS objects |
rev | Revert OPMS objects |
rev-method | Revert OPMS objects |
rev-methods | Revert OPMS objects |
run_kmeans | Conduct k-means partitioning |
run_kmeans-method | Conduct k-means partitioning |
run_kmeans-methods | Conduct k-means partitioning |
safe_labels | Safe labels |
select | Select a subset of the plates (or time points) [deprecated] |
select-method | Select a subset of the plates (or time points) [deprecated] |
select-methods | Select a subset of the plates (or time points) [deprecated] |
select_colors | Select colours |
separate | Regularly split character vectors if possible |
separate-method | Regularly split character vectors if possible |
separate-methods | Regularly split character vectors if possible |
seq | Sequence of plate indexes |
seq-method | Sequence of plate indexes |
seq-methods | Sequence of plate indexes |
setup_time | Setup time of the measuring |
setup_time-method | Setup time of the measuring |
setup_time-methods | Setup time of the measuring |
show | Show OPM or OPMS objects |
show-method | Show OPM or OPMS objects |
show-methods | Show OPM or OPMS objects |
sort | Sort OPMS objects |
sort-method | Sort OPMS objects |
sort-methods | Sort OPMS objects |
split_files | Split files |
subset | Select a subset of the plates (or time points) |
subset-method | Select a subset of the plates (or time points) |
subset-methods | Select a subset of the plates (or time points) |
substrate_info | Provide information on substrates |
substrate_info-method | Provide information on substrates |
substrate_info-methods | Provide information on substrates |
summary | Summarize OPM or OPMS objects |
summary-method | Summarize OPM or OPMS objects |
summary-methods | Summarize OPM or OPMS objects |
thin_out | Thin out the measurements |
thin_out-method | Thin out the measurements |
thin_out-methods | Thin out the measurements |
to_kmeans | Convert to kmeans |
to_kmeans.Ckmeans.1d.dp | Convert to kmeans |
to_kmeans.kmeans | Convert to kmeans |
to_kmeans.kmeanss | Convert to kmeans |
to_metadata | Input metadata |
to_metadata-method | Input metadata |
to_metadata-methods | Input metadata |
to_yaml | Convert to YAML |
to_yaml-method | Convert to YAML |
to_yaml-methods | Convert to YAML |
unique | Make OPMS objects unique |
unique-method | Make OPMS objects unique |
unique-methods | Make OPMS objects unique |
vaas_1 | Example data set from Vaas et al. (2012), a single selected plate |
vaas_4 | Example data set from Vaas et al. (2012), four selected plates |
well | Measurements from selected wells |
well-method | Measurements from selected wells |
well-methods | Measurements from selected wells |
wells | Available well names |
wells-method | Available well names |
wells-methods | Available well names |
well_to_substrate | Map well names to substrates |
WMD | WMD class |
WMD-class | WMD class |
xy_plot | XY plot |
xy_plot-method | XY plot |
xy_plot-methods | XY plot |
YAML_VIA_LIST | YAML_VIA_LIST class |
YAML_VIA_LIST-class | YAML_VIA_LIST class |
%K% | Search in metadata keys |
%k% | Search in metadata keys |
%K%-method | Search in metadata keys |
%k%-method | Search in metadata keys |
%Q% | Query metadata (strict version) |
%q% | Query metadata (non-exact version) |
%Q%-method | Query metadata (strict version) |
%q%-method | Query metadata (non-exact version) |
+-method | Addition |
[ | Select subset |
[-method | Select subset |