Retrieve representative protein domains from InterPro

Queries the InterPro API for a UniProt protein and returns a plain domain table accepted by lollipopPlot(). Results are cached outside the installed package so subsequent calls can work offline.

Usage

mutglyph_interpro_domains(
  proteinID,
  representative = TRUE,
  cache = TRUE,
  refresh = FALSE,
  cacheDir = tools::R_user_dir("MutGlyph", "cache")
)

Arguments

proteinID

One UniProt accession, optionally including an isoform suffix such as "P36888-1".

representative

Keep only InterPro's representative domain matches.

cache

Read and write a user-level cache.

refresh

Ignore an existing cached result and request current data.

cacheDir

Cache directory. The default is MutGlyph's platform-specific user cache directory.

Value

A data frame with start, end, label, description, accession, interpro_accession, source_database, type, representative, protein_id, and protein_length columns.

Details

Network access is explicit: plotting a returned or custom table never calls InterPro. For reproducible analyses, save the returned table with saveRDS() and reuse that snapshot.

Only entries classified as domains, repeats, or homologous superfamilies are returned. A discontinuous match produces one row for each fragment.

Examples

if (FALSE) { # \dontrun{
flt3_domains <- mutglyph_interpro_domains("P36888")
lollipopPlot(
  laml,
  gene = "FLT3",
  domains = flt3_domains
)
} # }