sbov {TxRegInfra} | R Documentation |
prototype of subsetter for mongo resource
sbov(rme, gr, map = basicCfieldsMap(), docTypeName = "type")
rme |
RaggedMongoExpt instance |
gr |
GRanges instance to subset by |
map |
list with one element per document type telling what fields are chr, start, stop |
docTypeName |
character(1) naming column of colData(rme) that has document type |
a RaggedExperiment instance
requireNamespace('mongolite') if (verifyHasMongoCmd()) { # for makeColData m1 = mongolite::mongo(url=URL_txregInAWS(), db='txregnet') cd = makeColData(url=URL_txregInAWS(), db='txregnet') rme1 = RaggedMongoExpt(m1, cd[which(cd$type=='FP'),][seq_len(8),]) BiocParallel::register(BiocParallel::SerialParam()) ss = sbov(rme1, GRanges('chr1', IRanges(1e6, 1.5e6))) }