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kevinrue / unisets

Collection of classes to store gene sets.
http://kevinrue.github.io/unisets
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Add rownames/set IDs to output of `setData()` #17

Closed robertamezquita closed 5 years ago

robertamezquita commented 5 years ago

Current implementation does not have the set IDs corresponding to setData() out.

gmt_file <- system.file(package="unisets", "extdata", "example.gmt")
base_sets_from_gmt <- import(gmt_file)
setData(base_sets_from_gmt)
IdVector of length 4 with 4 unique identifiers
Ids: HALLMARK_TNFA_SIGNALING_VIA_NFKB, HALLMARK_HYPOXIA, HALLMARK_CHOLESTEROL_HOMEOSTASIS, HALLMARK_MITOTIC_SPINDLE
Metadata: source (1 column)
elementMetadata(setData(base_sets_from_gmt))
DataFrame with 4 rows and 1 column
                                                                            source
                                                                       <character>
1 http://www.broadinstitute.org/gsea/msigdb/cards/HALLMARK_TNFA_SIGNALING_VIA_NFKB
2                 http://www.broadinstitute.org/gsea/msigdb/cards/HALLMARK_HYPOXIA
3 http://www.broadinstitute.org/gsea/msigdb/cards/HALLMARK_CHOLESTEROL_HOMEOSTASIS
4         http://www.broadinstitute.org/gsea/msigdb/cards/HALLMARK_MITOTIC_SPINDLE