![[R logo]](http://stat.ethz.ch/R-manual/R-devel/doc/html/Rlogo.svg)
![[Up]](http://stat.ethz.ch/R-manual/R-devel/doc/html/left.jpg)
![[Top]](http://stat.ethz.ch/R-manual/R-devel/doc/html/up.jpg)
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 data |
| aggregated-method | Get aggregated data |
| aggregated-methods | Get aggregated data |
| aggr_settings | Get aggregated data |
| aggr_settings-method | Get aggregated data |
| aggr_settings-methods | Get aggregated data |
| annotated | Create vector or matrix with substrate annotation |
| annotated-method | Create vector or matrix with substrate annotation |
| annotated-methods | Create vector or matrix with substrate annotation |
| anyDuplicated | Determine duplicated plates |
| anyDuplicated-method | Determine duplicated plates |
| anyDuplicated-methods | Determine duplicated plates |
| anyNA | Are aggregated or discretised data present? |
| anyNA-method | Are aggregated or discretised data present? |
| anyNA-methods | Are aggregated or discretised data present? |
| as.data.frame | Create data frame |
| as.data.frame-method | Create data frame |
| as.data.frame-methods | Create data frame |
| batch_collect | Helper functions for file input and output |
| batch_opm | Batch-convert PM data |
| batch_process | Helper functions for file input and output |
| best_cutoff | Discretisation functions |
| best_cutoff-method | Discretisation functions |
| best_cutoff-methods | Discretisation functions |
| boccuto_et_al | Autism cell-line example data set |
| borders | Work with k-means results |
| borders.Ckmeans.1d.dp | Work with k-means results |
| borders.kmeans | Work with k-means results |
| borders.kmeanss | Work with k-means results |
| bracket-method | Select subset |
| bracket-methods | Select subset |
| bracket.set-method | Assign subset |
| bracket.set-methods | Assign subset |
| c | Combination and addition of plates |
| c-method | Combination and addition of plates |
| c-methods | Combination and addition of plates |
| calinski | Work with k-means results |
| calinski.Ckmeans.1d.dp | Work with k-means results |
| calinski.kmeans | Work with k-means results |
| calinski.kmeanss | Work with k-means results |
| ci_plot | Plot point estimates with CIs |
| ci_plot-method | Plot point estimates with CIs |
| ci_plot-methods | Plot point estimates with CIs |
| collect_template | Input metadata |
| collect_template-method | Input metadata |
| collect_template-methods | Input metadata |
| contains | Determine duplicated plates |
| contains-method | Determine duplicated plates |
| contains-methods | Determine duplicated plates |
| csv_data | Information from input CSV file |
| csv_data-method | Information from input CSV file |
| csv_data-methods | Information from input CSV file |
| dim | Get dimensions |
| dim-method | Get dimensions |
| dim-methods | Get dimensions |
| discrete | Discretisation functions |
| discrete-method | Discretisation functions |
| discrete-methods | Discretisation functions |
| discretized | Get discretised data |
| discretized-method | Get discretised data |
| discretized-methods | Get discretised data |
| disc_settings | Get discretised data |
| disc_settings-method | Get discretised data |
| disc_settings-methods | Get discretised data |
| dollar.set-method | Assign subset |
| dollar.set-methods | Assign subset |
| double.bracket.set-method | Assign subset |
| double.bracket.set-methods | Assign subset |
| 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 | Discretise curve parameters |
| do_disc-method | Discretise curve parameters |
| do_disc-methods | Discretise curve parameters |
| duplicated | Determine duplicated plates |
| duplicated-method | Determine duplicated plates |
| duplicated-methods | Determine duplicated plates |
| edit | Add or map metadata or edit them by hand |
| edit-method | Add or map metadata or edit them by hand |
| edit-methods | Add or map metadata or edit them by hand |
| explode_dir | Helper functions for file input and output |
| extract | Extract aggregated values and/or metadata |
| extract-method | Extract aggregated values and/or metadata |
| extract-methods | Extract aggregated values and/or metadata |
| extract_columns | Extract aggregated values and/or metadata |
| extract_columns-method | Extract aggregated values and/or metadata |
| extract_columns-methods | Extract aggregated values and/or metadata |
| file_pattern | Helper functions for file input and output |
| find_positions | Identify substrates or positions |
| find_positions-method | Identify substrates or positions |
| find_positions-methods | Identify substrates or positions |
| find_substrate | Identify substrates or positions |
| find_substrate-method | Identify substrates or positions |
| find_substrate-methods | Identify substrates or positions |
| flatten | Create data frame |
| flatten-method | Create data frame |
| flatten-methods | Create data frame |
| FOE | Virtual classes of the 'opm' package |
| FOE-class | Virtual classes of the 'opm' package |
| gen_iii | Plate type displayed or modified, registered or deleted |
| gen_iii-method | Plate type displayed or modified, registered or deleted |
| gen_iii-methods | Plate type displayed or modified, registered or deleted |
| glob_to_regex | Helper functions for file input and output |
| glob_to_regex.character | Helper functions for file input and output |
| glob_to_regex.factor | Helper functions for file input and output |
| has_aggr | Are aggregated or discretised data present? |
| has_aggr-method | Are aggregated or discretised data present? |
| has_aggr-methods | Are aggregated or discretised data present? |
| has_disc | Are aggregated or discretised data present? |
| has_disc-method | Are aggregated or discretised data present? |
| has_disc-methods | Are aggregated or discretised data present? |
| heat_map | Heat map |
| heat_map-method | Heat map |
| heat_map-methods | Heat map |
| hist.Ckmeans.1d.dp | Work with k-means results |
| hist.kmeans | Work with k-means results |
| hist.kmeanss | Work with k-means results |
| hours | Stored measurements |
| hours-method | Stored measurements |
| hours-methods | Stored measurements |
| html_args | HTML formatting and output label generation |
| include_metadata | Add or map metadata or edit them by hand |
| include_metadata-method | Add or map metadata or edit them by hand |
| include_metadata-methods | Add or map metadata or edit them by hand |
| infix.k | Query metadata keys |
| infix.k-method | Query metadata keys |
| infix.k-methods | Query metadata keys |
| infix.largek | Query metadata keys |
| infix.largek-method | Query metadata keys |
| infix.largek-methods | Query metadata keys |
| infix.largeq | Query metadata |
| infix.largeq-method | Query metadata |
| infix.largeq-methods | Query metadata |
| infix.q | Query metadata |
| infix.q-method | Query metadata |
| infix.q-methods | Query metadata |
| kmeans | Work with k-means results |
| length-method | Get dimensions |
| length-methods | Get dimensions |
| level_plot | Level plot |
| level_plot-method | Level plot |
| level_plot-methods | Level plot |
| listing | Listing of well names |
| listing-method | Listing of well names |
| listing-methods | Listing of well names |
| map_metadata | Add or map metadata or edit them by hand |
| map_metadata-method | Add or map metadata or edit them by hand |
| map_metadata-methods | Add or map metadata or edit them by hand |
| map_values | Add or map metadata or edit them by hand |
| map_values-method | Add or map metadata or edit them by hand |
| map_values-methods | Add or map metadata or edit them by hand |
| max | Overall or minimal maximum |
| max-method | Overall or minimal maximum |
| max-methods | Overall or minimal maximum |
| measurements | Stored measurements |
| measurements-method | Stored measurements |
| measurements-methods | Stored measurements |
| merge | Merge or split plates |
| merge-method | Merge or split plates |
| merge-methods | Merge or split 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 |
| metadata_chars-method | Get metadata |
| metadata_chars-methods | Get metadata |
| minmax | Overall or minimal maximum |
| minmax-method | Overall or minimal maximum |
| minmax-methods | Overall or minimal maximum |
| MOPMX | Real classes of the 'opm' package |
| MOPMX-class | Real classes of the 'opm' package |
| oapply | Get available plates or apply function to them |
| oapply-method | Get available plates or apply function to them |
| oapply-methods | Get available plates or apply function to them |
| OPM | Real classes of the 'opm' package |
| OPM-class | Real classes of the 'opm' package |
| opm.package | The 'opm' package |
| OPMA | Real classes of the 'opm' package |
| OPMA-class | Real classes of the 'opm' package |
| OPMA_DB | Classes for 'opm' database I/O |
| OPMA_DB-class | Classes for 'opm' database I/O |
| OPMD | Real classes of the 'opm' package |
| OPMD-class | Real classes of the 'opm' package |
| OPMD_DB | Classes for 'opm' database I/O |
| OPMD_DB-class | Classes for 'opm' database I/O |
| OPMS | Real classes of the 'opm' package |
| opms | OPMS constructor |
| OPMS-class | Real classes of the 'opm' package |
| OPMX | Virtual classes of the 'opm' package |
| opmx | Convert user-defined objects to OPMX |
| OPMX-class | Virtual classes of the 'opm' package |
| opmx-method | Convert user-defined objects to OPMX |
| opmx-methods | Convert user-defined objects to OPMX |
| OPM_DB | Classes for 'opm' database I/O |
| OPM_DB-class | Classes for 'opm' database I/O |
| opm_dbcheck | Database I/O for 'opm' |
| opm_dbcheck-method | Database I/O for 'opm' |
| opm_dbcheck-methods | Database I/O for 'opm' |
| opm_dbclass | Database I/O for 'opm' |
| opm_dbclass-method | Database I/O for 'opm' |
| opm_dbclass-methods | Database I/O for 'opm' |
| opm_dbclear | Database I/O for 'opm' |
| opm_dbclear-method | Database I/O for 'opm' |
| opm_dbclear-methods | Database I/O for 'opm' |
| opm_dbfind | Database I/O for 'opm' |
| opm_dbfind-method | Database I/O for 'opm' |
| opm_dbfind-methods | Database I/O for 'opm' |
| opm_dbget | Database I/O for 'opm' |
| opm_dbget-method | Database I/O for 'opm' |
| opm_dbget-methods | Database I/O for 'opm' |
| opm_dbnext | Database I/O for 'opm' |
| opm_dbnext-method | Database I/O for 'opm' |
| opm_dbnext-methods | Database I/O for 'opm' |
| opm_dbput | Database I/O for 'opm' |
| opm_dbput-method | Database I/O for 'opm' |
| opm_dbput-methods | Database I/O for 'opm' |
| opm_files | Files and colour sets used by the package |
| opm_mcp | Multiple comparison of group means |
| opm_mcp-method | Multiple comparison of group means |
| opm_mcp-methods | Multiple comparison of group means |
| OPM_MCP_OUT | Real classes of the 'opm' package |
| OPM_MCP_OUT-class | Real classes of the 'opm' package |
| opm_opt | Global 'opm' options |
| opm_opt-method | Global 'opm' options |
| opm_opt-methods | Global 'opm' options |
| parallelplot | Parallel plot |
| parallelplot-method | Parallel plot |
| parallelplot-methods | Parallel plot |
| parallel_plot | Parallel plot |
| parallel_plot-method | Parallel plot |
| parallel_plot-methods | Parallel plot |
| param_names | Global 'opm' options |
| param_names-method | Global 'opm' options |
| param_names-methods | Global 'opm' options |
| phylo_data | Export phylogenetic data |
| phylo_data-method | Export phylogenetic data |
| phylo_data-methods | Export phylogenetic data |
| plates | Get available plates or apply function to them |
| plates-method | Get available plates or apply function to them |
| plates-methods | Get available plates or apply function to them |
| plate_type | Plate type displayed or modified, registered or deleted |
| plate_type-method | Plate type displayed or modified, registered or deleted |
| plate_type-methods | Plate type displayed or modified, registered or deleted |
| plot.kmeanss | Work with k-means results |
| plus | Combination and addition of plates |
| plus-method | Combination and addition of plates |
| plus-methods | Combination and addition of plates |
| potato | Potato cell-line growth data set |
| radial_plot | Radial plot |
| radial_plot-method | Radial plot |
| radial_plot-methods | Radial plot |
| read_opm | Read multiple PM files at once or read single PM file |
| read_single_opm | Read multiple PM files at once or read single PM file |
| register_plate | Plate type displayed or modified, registered or deleted |
| register_plate-method | Plate type displayed or modified, registered or deleted |
| register_plate-methods | Plate type displayed or modified, registered or deleted |
| rep | Sort, unify, revert or repeat OPMS objects |
| rep-method | Sort, unify, revert or repeat OPMS objects |
| rep-methods | Sort, unify, revert or repeat OPMS objects |
| rev | Sort, unify, revert or repeat OPMS objects |
| rev-method | Sort, unify, revert or repeat OPMS objects |
| rev-methods | Sort, unify, revert or repeat OPMS objects |
| run_kmeans | Conduct k-means partitioning |
| run_kmeans-method | Conduct k-means partitioning |
| run_kmeans-methods | Conduct k-means partitioning |
| safe_labels | HTML formatting and output label generation |
| select_colors | Files and colour sets used by the package |
| separate | Regularly split character vectors if possible |
| separate-method | Regularly split character vectors if possible |
| separate-methods | Regularly split character vectors if possible |
| seq | Get dimensions |
| seq-method | Get dimensions |
| seq-methods | Get dimensions |
| set_spline_options | Spline options |
| show-method | Summarise OPMX or MOPMX objects |
| show-methods | Summarise OPMX or MOPMX objects |
| sort | Sort, unify, revert or repeat OPMS objects |
| sort-method | Sort, unify, revert or repeat OPMS objects |
| sort-methods | Sort, unify, revert or repeat OPMS objects |
| split | Merge or split plates |
| split-method | Merge or split plates |
| split-methods | Merge or split plates |
| split_files | Helper functions for file input and output |
| str-method | Summarise OPMX or MOPMX objects |
| str-methods | Summarise OPMX or MOPMX objects |
| 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 | Summarise OPMX or MOPMX objects |
| summary-method | Summarise OPMX or MOPMX objects |
| summary-methods | Summarise OPMX or MOPMX objects |
| thin_out | Select a subset of the plates (or time points) |
| thin_out-method | Select a subset of the plates (or time points) |
| thin_out-methods | Select a subset of the plates (or time points) |
| to_kmeans | Work with k-means results |
| to_kmeans.Ckmeans.1d.dp | Work with k-means results |
| to_kmeans.kmeans | Work with k-means results |
| to_kmeans.kmeanss | Work with k-means results |
| 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 | Sort, unify, revert or repeat OPMS objects |
| unique-method | Sort, unify, revert or repeat OPMS objects |
| unique-methods | Sort, unify, revert or repeat OPMS objects |
| vaas_1 | Example data sets from Vaas et al. (2012) |
| vaas_4 | Example data sets from Vaas et al. (2012) |
| well | Stored measurements |
| well-method | Stored measurements |
| well-methods | Stored measurements |
| wells | Listing of well names |
| wells-method | Listing of well names |
| wells-methods | Listing of well names |
| WMD | Virtual classes of the 'opm' package |
| WMD-class | Virtual classes of the 'opm' package |
| WMDS | Virtual classes of the 'opm' package |
| WMDS-class | Virtual classes of the 'opm' package |
| WMDX | Virtual classes of the 'opm' package |
| WMDX-class | Virtual classes of the 'opm' package |
| XOPMX | Virtual classes of the 'opm' package |
| XOPMX-class | Virtual classes of the 'opm' package |
| xy_plot | X-Y plot |
| xy_plot-method | X-Y plot |
| xy_plot-methods | X-Y plot |
| YAML_VIA_LIST | Virtual classes of the 'opm' package |
| YAML_VIA_LIST-class | Virtual classes of the 'opm' package |
| $<- | Assign subset |
| $<--method | Assign subset |
| %K% | Query metadata keys |
| %k% | Query metadata keys |
| %K%-method | Query metadata keys |
| %k%-method | Query metadata keys |
| %Q% | Query metadata |
| %q% | Query metadata |
| %Q%-method | Query metadata |
| %q%-method | Query metadata |
| +-method | Combination and addition of plates |
| [ | Select subset |
| [-method | Select subset |
| [<- | Assign subset |
| [<--method | Assign subset |
| [[<- | Assign subset |
| [[<--method | Assign subset |