Man pages for jeffbhasin/goldmine
goldmine: Genomic context annotation for any set of genomic ranges using UCSC Genome Browser tables

addGenesAdd columns with distance to nearest gene and gene symbol(s)
addNearestAdd columns to query with distance to nearest subject and...
drawGenomePoolDraw a length-matched pool of sequences from the genome
getCpgFeaturesGenerate feature sets based on CpG island, shore, and shelf...
getFeaturesObtain feature sets from UCSC genome browser tables
getGeneModelsReturn sets of ranges for individual gene model components...
getGenesLoad table of gene ranges via UCSC Genome Browser tables
getUCSCTableLoad an annotation table from the UCSC Genome Browser as an R...
ggniceNice ggplot2 theme
gmWriteWrite individual CSV files to disk from the output of...
goldmineExplore relationships between a set of genomic ranges and...
goldmine-packagegoldmine: Genomic context annotation for any set of genomic...
makeDTMake a data.table from a GRanges or a data.frame
makeGRangesMake a GRanges from a data.frame or data.table with the...
readUCSCAnnotationRead UCSC table files from disk and join all related tables
sortDTSort a data.frame, data.table, or GRanges by chr (accounting...
sortGRangesSort a data.frame, data.table, or GRanges by chr (accounting...
writeBEDFromGRangesWrite a BED format file from a GenomicRanges object
jeffbhasin/goldmine documentation built on July 20, 2018, 9:30 a.m.