API for MassDynamics/MassExpression
MassExpression
| Global functions | |
|---|---|
| .validateInputCompleteExperiment | Source code |
| MassExpressionTOProtCountV2 | Man page Source code |
| SEToLongDT | Man page Source code |
| computeImputedCounts | Man page Source code |
| computeReplicateCounts | Man page Source code |
| compute_pcas | Man page Source code |
| condition_name_decode_comparison_mapping | Source code |
| condition_name_decode_intensity_data | Source code |
| condition_name_decode_limma_table | Source code |
| condition_name_encoder | Source code |
| createComparisonExperiment | Source code |
| createCompleteIntensityExperiment | Man page Source code |
| createSummarizedExperiment | Man page Source code |
| fill_out_missing_columns | Source code |
| filterComparisonColumns | Source code |
| filterComparisonRows | Source code |
| filter_stats_table_on_comparison | Source code |
| fragpipe_data | Man page |
| generate_qc_report | Man page Source code |
| generate_separate_qc_reports | Man page Source code |
| getDownCondition | Source code |
| getUpCondition | Source code |
| get_names_qc | Man page Source code |
| imputeLFQ | Man page Source code |
| initialiseLongIntensityDT | Man page Source code |
| limmaStatsFun | Man page Source code |
| listComparisonExperiments | Man page Source code |
| makeRLEBoxplotInteractive | Man page Source code |
| mq_lfq_data | Man page |
| normaliseIntensity | Man page Source code |
| oneGroupReplDataV2 | Man page Source code |
| oneProteinReplData | Man page Source code |
| pd_iPRG_data | Man page |
| plot_chosen_pca_experiment | Man page Source code |
| plot_condition_cv_distribution | Man page Source code |
| plot_consistent_proteins_by_replicate | Man page Source code |
| plot_density_distr | Man page Source code |
| plot_imputed_vs_not | Man page Source code |
| plot_log_measurement_boxplot | Man page Source code |
| plot_ma | Man page |
| plot_mds_experiment | Man page Source code |
| plot_missingness_heatmap | Man page Source code |
| plot_n_identified_proteins_by_replicate | Man page Source code |
| plot_pca_experiment | Man page Source code |
| plot_protein_missingness | Man page Source code |
| plot_replicate_measured_values | Man page Source code |
| plot_rle_boxplot | Man page Source code |
| plot_samples_correlation_matrix | Man page |
| plot_volcano | Man page |
| prepareForFiltering | Man page Source code |
| preparePlottingData | Man page Source code |
| rename_comparison_statistics_export | Source code |
| runGenericDiscovery | Man page Source code |
| runLimmaPipeline | Man page Source code |
| sanitize_strings | Man page Source code |
| sanitize_strings_in_dataframe | Man page Source code |
| saveOutput | Man page Source code |
| select_features_for_pca | Man page Source code |
| validateComparison | Source code |
| writeLimmaStatisticsTable | Man page Source code |
| writeOutputFile | Man page Source code |
| writeProteinQuantIntensities | Man page Source code |
| writeProteinViz | Man page Source code |
| writeReplicateData | Man page Source code |
| writeReplicateDataV2 | Man page Source code |
