New and relevant packages

Martin Morgan
February 3, 2015

Bioconductor packages

GenomicFiles

GenomeInfoDb

BiocStyle

(Rhtslib)

Bioconductor functionality

GenomicAlignments::readGAlignmentPairs() / readGAlignmentsList()

Rsamtools::pileup()

VariantAnnotation::VRanges()

findOverlaps(): significant performance improvements

AnnotationDbi::mapIds()

Contributed packages

csaw

Rariants

SGSeq

ballgown

derfinder

AnalysisPageServer

ggtree

Etc.