| .create_wide_covariate_table |
Source code
|
| .ds_annot_validate |
Source code
|
| .extra_classes |
Source code
|
| .extract_batch_terms |
Source code
|
| .fetch_assay_data |
Source code
|
| .gene_info |
Source code
|
| .level_biotypes |
Man page
Source code
|
| .melt.assay.matrix |
Source code
|
| .merge_ds_annot |
Source code
|
| .parse_filter_vars |
Source code
|
| .prepare_sample_covariates |
Man page
Source code
|
| .tidy.core |
Source code
|
| .transcript_info |
Source code
|
| FacileData |
Man page
|
| FacileData-package |
Man page
|
| FacileDataSet |
Man page
Source code
|
| adata |
Man page
Source code
|
| adata.DGEList |
Source code
|
| adata.EList |
Source code
|
| adata.ExpressionSet |
Source code
|
| adata.SummarizedExperiment |
Source code
|
| addFacileAssaySet |
Man page
Source code
|
| an_fds |
Man page
Source code
|
| anti_join |
Man page
|
| anti_join.facile_frame |
Source code
|
| append_facile_feature_info |
Man page
Source code
|
| append_facile_table |
Man page
Source code
|
| arrange |
Man page
|
| arrange.facile_frame |
Source code
|
| as.DGEList |
Man page
Source code
|
| as.DGEList.FacileDataSet |
Man page
Source code
|
| as.DGEList.data.frame |
Man page
Source code
|
| as.DGEList.facile_frame |
Man page
Source code
|
| as.DGEList.matrix |
Source code
|
| as.DGEList.tbl |
Man page
Source code
|
| as.EAVtable |
Man page
Source code
|
| as.ExpressionSet |
Man page
Source code
|
| as.ExpressionSet.FacileDataSet |
Man page
Source code
|
| as.ExpressionSet.data.frame |
Man page
Source code
|
| as.FacileDataSet |
Man page
Source code
|
| as.FacileDataSet.default |
Source code
|
| as.FacileDataSet.list |
Man page
Source code
|
| as.SummarizedExperiment |
Man page
Source code
|
| as.SummarizedExperiment.FacileDataSet |
Man page
Source code
|
| as.SummarizedExperiment.data.frame |
Man page
Source code
|
| as_Surv |
Man page
Source code
|
| as_cSurv |
Man page
Source code
|
| as_facile_frame |
Man page
Source code
|
| assay_feature_info_tbl |
Source code
|
| assay_feature_info_tbl.FacileDataSet |
Source code
|
| assay_feature_name_map |
Man page
Source code
|
| assay_feature_type |
Man page
Source code
|
| assay_info |
Man page
Source code
|
| assay_info.FacileDataSet |
Source code
Source code
|
| assay_info_tbl |
Source code
|
| assay_info_tbl.FacileDataSet |
Source code
|
| assay_names |
Source code
|
| assay_names.FacileDataSet |
Source code
|
| assay_names.default |
Source code
|
| assay_names.facile_frame |
Source code
|
| assay_sample_info |
Man page
Source code
|
| assay_sample_info.FacileDataSet |
Source code
|
| assay_sample_info.facile_frame |
Source code
|
| assay_sample_info_tbl |
Source code
|
| assay_sample_info_tbl.FacileDataSet |
Source code
|
| assay_sample_info_tbl.default |
Source code
|
| assay_summary |
Man page
Source code
|
| assay_summary.FacileDataStore |
Source code
|
| assay_summary.facile_frame |
Source code
|
| assay_units |
Man page
Source code
|
| assay_units.FacileDataStore |
Source code
|
| assembleFacileDataSet |
Man page
Source code
|
| assemble_example_dataset |
Man page
Source code
|
| assert_assay_feature_descriptor |
Man page
Source code
|
| assert_categorical |
Man page
Source code
|
| assert_columns |
Man page
Source code
|
| assert_covariate_definitions |
Man page
Source code
|
| assert_expression_result |
Man page
Source code
|
| assert_facet_descriptor |
Man page
Source code
|
| assert_facile_data_set |
Man page
Source code
|
| assert_facile_data_store |
Man page
Source code
|
| assert_facile_dataset_directory |
Source code
|
| assert_sample_covariates |
Man page
Source code
|
| assert_sample_statistics |
Man page
Source code
|
| assert_sample_subset |
Man page
Source code
|
| assert_valid_assay_datasets |
Source code
|
| assert_valid_meta_file |
Source code
|
| bb.DGEList |
Source code
|
| bb.EList |
Source code
|
| bb.ExpressionSet |
Source code
|
| bb.SummarizedExperiment |
Source code
|
| bb.list |
Source code
|
| bind_cols |
Man page
|
| bind_rows |
Man page
|
| biocbox |
Man page
Source code
|
| biocbox.FacileDataStore |
Source code
|
| biocbox.facile_frame |
Man page
Source code
|
| biocbox_assay_class |
Source code
|
| build_assay_list_file_path |
Man page
Source code
|
| build_assay_lists_load |
Man page
Source code
|
| build_available_assays |
Man page
Source code
|
| build_pb_split |
Man page
Source code
|
| cSurv |
Man page
|
| can.spread.assay.by.name |
Source code
|
| cast_covariate |
Man page
Source code
|
| check_categorical |
Man page
Source code
|
| check_facile_data_set |
Man page
Source code
|
| check_facile_data_store |
Man page
Source code
|
| check_facile_dataset_directory |
Source code
|
| check_sample_subset |
Man page
Source code
|
| collect |
Man page
|
| collect.facile_frame |
Source code
|
| conform_data_frame |
Man page
Source code
|
| covariate_definitions |
Man page
Source code
|
| covariate_definitions.FacileDataSet |
Source code
|
| covariate_meta_info |
Man page
Source code
|
| create_assay_feature_descriptor |
Man page
Source code
|
| dataset_definitions |
Man page
Source code
|
| dbfn |
Man page
Source code
|
| default_assay |
Source code
|
| default_assay.FacileDataSet |
Man page
Source code
|
| default_assay.default |
Source code
|
| distinct |
Man page
|
| distinct.facile_frame |
Source code
|
| downcast_ff |
Source code
|
| ds_annot |
Man page
Source code
|
| ds_annot.ExpressionSet |
Source code
|
| ds_annot.SummarizedExperiment |
Source code
|
| ds_annot.default |
Source code
|
| eav_decode_cSurv |
Man page
Source code
|
| eav_decode_categorical |
Man page
Source code
|
| eav_decode_logical |
Man page
Source code
|
| eav_decode_real |
Man page
Source code
|
| eav_decode_right_censored |
Man page
Source code
|
| eav_encode |
Man page
Source code
|
| eav_encode_cSurv |
Man page
Source code
|
| eav_encode_categorical |
Man page
Source code
|
| eav_encode_covariate |
Man page
Source code
|
| eav_encode_logical |
Man page
Source code
|
| eav_encode_real |
Man page
Source code
|
| eav_encode_right_censored |
Man page
Source code
|
| eav_metadata_create |
Man page
Source code
|
| eav_metadata_merge |
Man page
Source code
|
| eavdef_for_column |
Man page
Source code
|
| exampleFacileDataSet |
Man page
Source code
|
| example_meta |
Man page
Source code
|
| example_sample_covariate_definitions |
Man page
Source code
|
| example_sample_covariates |
Man page
Source code
|
| executeSQL |
Man page
Source code
|
| extract.assay |
Source code
|
| extract_transcribed_info_from_ensembl_gtf |
Man page
Source code
|
| facet_frame |
Man page
Source code
|
| facet_frame.FacileDataSet |
Man page
Source code
|
| facet_frame.default |
Source code
|
| facilitate |
Man page
Source code
|
| fdata |
Man page
Source code
|
| fdata.DGEList |
Source code
|
| fdata.EList |
Source code
|
| fdata.ExpressionSet |
Source code
|
| fdata.SummarizedExperiment |
Source code
|
| fdebug |
Source code
|
| fds |
Man page
Source code
|
| fds.FacileDataStore |
Man page
Source code
|
| fds.default |
Man page
Source code
|
| fds<- |
Man page
|
| fds<-.data.frame |
Man page
|
| fds<-.tbl |
Man page
|
| feature_info_tbl |
Source code
|
| feature_info_tbl.FacileDataSet |
Source code
|
| feature_name_map |
Man page
Source code
|
| feature_types |
Man page
Source code
|
| features |
Man page
Source code
|
| features.FacileDataSet |
Source code
|
| ferror |
Source code
|
| fetch_assay_covariates |
Source code
|
| fetch_assay_data |
Man page
Source code
|
| fetch_assay_data.FacileDataSet |
Source code
|
| fetch_assay_data.default |
Source code
|
| fetch_assay_data.facile_frame |
Source code
|
| fetch_assay_score |
Man page
Source code
|
| fetch_assay_score.FacileDataSet |
Man page
Source code
|
| fetch_assay_score.default |
Source code
|
| fetch_custom_sample_covariates |
Source code
|
| fetch_custom_sample_covariates.FacileDataSet |
Man page
Source code
|
| fetch_custom_sample_covariates.default |
Source code
|
| fetch_feature_info |
Source code
|
| fetch_feature_info.FacileDataStore |
Source code
|
| fetch_feature_info.default |
Source code
|
| fetch_sample_covariates |
Man page
Source code
|
| fetch_sample_covariates.FacileDataSet |
Man page
Source code
|
| fetch_sample_covariates.default |
Source code
|
| fetch_sample_covariates.facile_frame |
Man page
Source code
|
| fetch_sample_statistics |
Man page
Source code
|
| fetch_sample_statistics.FacileDataSet |
Man page
Source code
|
| fetch_sample_statistics.default |
Man page
Source code
|
| fetch_samples |
Source code
|
| fetch_samples.FacileDataSet |
Man page
Source code
|
| fetch_samples.default |
Source code
|
| ffatal |
Source code
|
| filter |
Man page
|
| filter.facile_frame |
Source code
|
| filter_by_assay_support |
Man page
Source code
|
| filter_features |
Source code
|
| filter_features.FacileDataSet |
Man page
Source code
|
| filter_features.default |
Source code
|
| filter_samples |
Source code
|
| filter_samples.FacileDataSet |
Man page
Source code
|
| filter_samples.default |
Source code
|
| filter_samples.facile_frame |
Source code
|
| finfo |
Source code
|
| flog |
Man page
Source code
|
| flog_level |
Man page
Source code
|
| freplace_na |
Man page
Source code
|
| freplace_na.data.frame |
Source code
|
| freplace_na.default |
Source code
|
| freplace_na.list |
Source code
|
| ftrace |
Source code
|
| full_join.facile_frame |
Source code
|
| fwarn |
Source code
|
| gene_info_tbl |
Source code
|
| gene_info_tbl.FacileDataSet |
Man page
Source code
|
| group_by |
Man page
|
| group_by.facile_frame |
Source code
|
| has_assay |
Man page
Source code
|
| has_assay.FacileDataStore |
Source code
|
| has_assay.facile_frame |
Source code
|
| has_columns |
Man page
Source code
|
| has_feature_type |
Man page
Source code
|
| hdf5fn |
Man page
Source code
|
| infer_feature_type |
Man page
Source code
|
| initializeFacileDataSet |
Man page
Source code
|
| inner_join |
Man page
|
| inner_join.facile_frame |
Source code
|
| is.FacileDataSet |
Man page
Source code
|
| is_assay_feature_descriptor |
Man page
Source code
|
| is_covariate_definitions |
Man page
Source code
|
| is_expression_result |
Man page
Source code
|
| is_facet_descriptor |
Man page
Source code
|
| is_sample_covariates |
Man page
Source code
|
| is_sample_statistics |
Man page
Source code
|
| join_samples |
Man page
Source code
|
| label |
Source code
|
| label.NULL |
Source code
|
| left_join |
Man page
|
| left_join.facile_frame |
Source code
|
| meta_file |
Man page
Source code
|
| meta_info |
Man page
Source code
|
| mutate |
Man page
|
| mutate.facile_frame |
Source code
|
| name |
Man page
Source code
|
| name.FacileDataSet |
Source code
|
| name.NULL |
Source code
|
| nameit |
Man page
Source code
|
| nest_join |
Man page
|
| nest_join.facile_frame |
Source code
|
| normalize_assay_data |
Man page
Source code
|
| normalize_assay_matrix.lognorm |
Source code
|
| normalize_assay_matrix.qpcrct |
Source code
|
| normalize_assay_matrix.qpcrdct |
Source code
|
| normalize_assay_matrix.raw |
Source code
|
| normalize_assay_matrix.rnaseq |
Source code
|
| normalize_assay_matrix.tpm |
Source code
|
| organism |
Source code
|
| organism.FacileDataSet |
Man page
Source code
|
| organism.default |
Source code
|
| organism.facile_frame |
Source code
|
| parse_sample_criterion |
Man page
Source code
|
| pdata |
Man page
Source code
|
| pdata.DGEList |
Source code
|
| pdata.EList |
Source code
|
| pdata.ExpressionSet |
Source code
|
| pdata.SummarizedExperiment |
Source code
|
| pdata_metadata |
Man page
Source code
|
| pdata_metadata.DGEList |
Source code
|
| pdata_metadata.EList |
Source code
|
| pdata_metadata.ExpressionSet |
Source code
|
| pdata_metadata.SummarizedExperiment |
Source code
|
| primary_key |
Man page
Source code
|
| print.FacileDataSet |
Source code
|
| print.facile_frame |
Source code
|
| reexports |
Man page
|
| remove_batch_effect |
Man page
Source code
|
| rename |
Man page
|
| rename.facile_frame |
Source code
|
| reqpkg |
Source code
|
| retrieve_samples_in_memory |
Source code
|
| right_join.facile_frame |
Source code
|
| sample_covariate_summary |
Man page
Source code
|
| sample_covariate_summary.FacileDataSet |
Source code
|
| sample_covariate_summary.facile_frame |
Source code
|
| sample_covariate_tbl |
Source code
|
| sample_covariate_tbl.FacileDataSet |
Source code
|
| sample_covariates.facile_frame |
Source code
|
| sample_info_tbl |
Source code
|
| sample_info_tbl.FacileDataSet |
Source code
|
| sample_stats_tbl |
Source code
|
| sample_stats_tbl.FacileDataSet |
Source code
|
| samples |
Man page
Source code
|
| samples.FacileDataSet |
Man page
Source code
|
| samples.default |
Source code
|
| samples.facile_frame |
Source code
|
| samples_look_concordant |
Source code
|
| save_custom_sample_covariates |
Man page
Source code
|
| select |
Man page
|
| select.facile_frame |
Source code
|
| semi_join |
Man page
|
| semi_join.facile_frame |
Source code
|
| set_class |
Man page
Source code
|
| set_fds |
Man page
Source code
|
| some_celltypes |
Man page
Source code
|
| some_features |
Man page
Source code
|
| some_samples |
Man page
Source code
|
| spread_assay_data |
Man page
Source code
|
| spread_covariates |
Man page
Source code
|
| sqlFromFile |
Man page
Source code
|
| subset.facile_frame |
Source code
|
| summarise |
Man page
|
| summarize |
Man page
|
| summary.eav_covariates |
Man page
Source code
|
| summary.wide_covariates |
Source code
|
| supported.assay.container |
Source code
|
| test_categorical |
Man page
Source code
|
| test_facile_data_set |
Man page
Source code
|
| test_facile_data_store |
Man page
Source code
|
| test_facile_dataset_directory |
Source code
|
| test_sample_subset |
Man page
Source code
|
| tidy |
Man page
|
| tidy.DGEList |
Source code
|
| tidy.EList |
Source code
|
| tidy.SummarizedExperiment |
Source code
|
| tidy.matrix |
Source code
|
| transmute |
Man page
|
| transmute.facile_frame |
Source code
|
| ungroup |
Man page
|
| ungroup.facile_frame |
Source code
|
| upcast_ff |
Source code
|
| validate.facile.dirs |
Source code
|
| validate.fdata |
Source code
|
| validate.pdata |
Source code
|
| validate_covariate_def_list |
Man page
Source code
|
| with_assay_covariates |
Source code
|
| with_assay_covariates.data.frame |
Source code
|
| with_assay_covariates.facile_frame |
Source code
|
| with_assay_data |
Source code
|
| with_assay_data.data.frame |
Source code
|
| with_assay_data.default |
Source code
|
| with_assay_data.facile_frame |
Man page
Source code
|
| with_assay_data.tbl |
Source code
|
| with_feature_info |
Man page
Source code
|
| with_feature_info.data.frame |
Source code
|
| with_feature_info.default |
Source code
|
| with_feature_info.facile_frame |
Source code
|
| with_feature_info.tbl |
Source code
|
| with_sample_covariates |
Man page
Source code
|
| with_sample_covariates.data.frame |
Source code
|
| with_sample_covariates.default |
Source code
|
| with_sample_covariates.facile_frame |
Source code
|
| with_sample_covariates.tbl |
Source code
|
