API for RGLab/HIPCMatrix
Microarray and RNA-seq Processing for ImmuneSpace
| Global functions | |
|---|---|
| .fix_headers | Man page Source code |
| .ge_list_to_flat_file | Man page Source code |
| .getGEO_custom | Man page Source code |
| .get_geo_supp_files | Man page Source code |
| .get_supp_files_dir | Man page Source code |
| .make_id_to_gsm_map | Man page Source code |
| .map_feature_id_col | Man page Source code |
| .map_sampleid_to_biosample_accession | Man page Source code |
| .prep_geo_files | Man page Source code |
| .prep_illumina_headers | Man page Source code |
| .prep_immport_files | Man page Source code |
| .process_affy | Man page Source code |
| .process_illumina | Man page Source code |
| .process_rna_seq | Man page Source code |
| .process_two_color_array | Man page Source code |
| .select_input_files | Man page Source code |
| .subset_raw_illumina_dt | Man page Source code |
| .write_raw_expression | Man page Source code |
| HMX | Man page |
| chaussabel_modules | Man page |
| create_gene_alias_map | Man page Source code |
| create_gene_alias_map_from_hgnc_set | Source code |
| download_hgnc_complete_set | Source code |
| emory_blood_transcript_modules | Man page |
| find_de_genes_eBayes | Man page Source code |
| format_predictor_table | Man page |
| get_de_compatible_runs | Source code |
| get_de_genes | Man page |
| get_immune_response | Man page Source code |
| get_input_params | Source code |
| get_meta_data | Man page Source code |
| gsea | Man page Source code |
| hgncAlias2Symbol | Man page |
| hgncAlias2Symbol_version | Man page |
| log_message | Source code |
| makeAnnoDf | Man page Source code |
| make_raw_matrix | Man page Source code |
| mapAlias2Symbol | Man page Source code |
| meta_data_list | Man page |
| msigdb_immunologic_signatures | Man page |
| normalize_matrix | Man page Source code |
| normalize_microarray | Man page Source code |
| normalize_rnaseq | Man page Source code |
| orig_btm_list | Man page |
| orig_chaussabel | Man page |
| orig_emory | Man page |
| orig_msigdb | Man page |
| parse_pipeline_inputs | Source code |
| predict_response | Man page |
| print.ImmuneResponsePredictor | Man page Source code |
| retrieve_input_files | Man page Source code |
| runCreateMx | Man page Source code |
| run_de_analysis | Man page Source code |
| run_gsea | Man page Source code |
| run_irp | Man page |
| summarize_by_gene_symbol | Man page Source code |
| train_immune_response_predictors | Man page |
| updateEMs | Man page Source code |
| updateFAS | Man page Source code |
| update_geneset_symbols | Man page Source code |
| updated_btm_df | Man page |
| updated_btm_list | Man page |
| uploadGEAnalysisResults | Man page |
| upload_de_analysis_results | Source code |
| write_matrix | Man page Source code |
