genemodel {erma} | R Documentation |
create GRanges instance with model for a gene
genemodel(key, keytype, annoResource = Homo.sapiens, keepStandardChromosomes=TRUE) geneTxRange(sym, annoResource = Homo.sapiens) map2range(maptag="17q12", annoResource = Homo.sapiens)
sym |
symbol used as key into |
key |
string used as key into |
maptag |
string used as key into |
keytype |
string used as keytype for |
annoResource |
OrganismDb instance; genemodel will also work with an EnsDb instance |
keepStandardChromosomes |
if true, will eliminate non-standard chromosomes using the eponymous function from GenomeInfoDb, with pruning.mode = 'coarse' |
map2range will obtain all TXSTART and TXEND for genes identified through select with key maptag and return a single range with min TXSTART and max TXEND
a GRanges
instance
genemodel revised Aug 10 2015. Direct operations on Homo.sapiens, much faster. geneTxRange added Aug 10 2015.
genemodel("IL33") geneTxRange("IL33") map2range("17q12")