| addRD |
add gene-level rowData derived from transcript level rowRanges |
| ca43k |
app to survey 43000 cancer transcriptomes |
| get_ds4841 |
return instance of ssrch::DocSet with metadata on 4841 human transcriptome studies in NCBI SRA |
| htx_app |
explore SRA metadata |
| htx_load |
load a SummarizedExperiment shell for the Human Transcriptome Compendium |
| htx_query_by_study_accession |
retrieve 'restfulSE' SummarizedExperiment instance for selected studies in htx compendium |
| htx_query_by_text |
subset compendium through keyword lookup |
| HumanTranscriptomeCompendium.colnames |
character vector of available samples in HDF cloud assay representation |
| load_bigrnaFiles |
obtain listing of contents of BigRNA compendium (salmon runs) |
| load_experTable |
obtain listing of experiments and submission date/time in compendium |
| load_studTable |
obtain listing of all studies in compendium |
| path_doc4842 |
return path to metadata csvs in zip file |
| procExpToGene |
acquire a single sample from bigRNA compendium specified by accession and develop gene-level quantifications using tximport |
| tx2gene_gencode27 |
generate a data.frame mapping gencode 27 ensembl transcript identifiers to ensembl gene identifiers |
| uniqueAcc_120518 |
experiment accessions available in compendium as of may 12 2018 |
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