Last data update: 2014.03.03

Data Source

R Release (3.2.3)
CranContrib
BioConductor
All

Data Type

Packages
Functions
Images
Data set

Classification

Results 1 - 7 of 7 found.
[1] < 1 > [1]  Sort:

BED12toGRangesList (Package: Guitar) :

read bed12 format into R as GRangesList object
● Data Source: BioConductor
● Keywords: GRangesList, bed12
● Alias: BED12toGRangesList
● 0 images

Guitar-package (Package: Guitar) :

RNA Landmarks Guided Transcriptomic View of RNA-related Genomic Features.
● Data Source: BioConductor
● Keywords:
● Alias: Guitar, Guitar-package
1 images

GuitarPlot (Package: Guitar) :

Plot the transcriptomic distribution of genomic features
● Data Source: BioConductor
● Keywords: ~kwd1, ~kwd2
● Alias: GuitarPlot
1 images

getNeighborhood (Package: Guitar) :

This functon extract the neighborhood DNA regions of a GRangesList object. The neighborhood DNA regions represent the promoter region (5'end) and complementary DNA region on the 3'end, which we call "Tail" here. The 5'end neighborhood DNA can often be useful as a kind of negative control region that is not associated with a clear biological function.
● Data Source: BioConductor
● Keywords: ~kwd1, ~kwd2
● Alias: getNeighborhood
● 0 images

makeGuitarCoordsFromGRangesList (Package: Guitar) :

make Guitar Coordinates From a GRangesList object
● Data Source: BioConductor
● Keywords: GRanges, GRangesList, Guitar
● Alias: makeGuitarCoordsFromGRangesList
● 0 images

makeGuitarCoordsFromTxDb (Package: Guitar) :

Make a Guitar Coordinates from TranscriptDb object, i.e., making Guitar coordinates for 8 different components, including, 5'UTR, CDS, 3'UTR, lncRNA, Pomoter and Tail of mRNA and lncRNA. Additional filters will discard transcripts that are too short or has too much ambigous on Genome to increase the sensitivity of the analysis.
● Data Source: BioConductor
● Keywords: ~kwd1, ~kwd2
● Alias: makeGuitarCoordsFromTxDb
● 0 images

narrowPeaktoGRanges (Package: Guitar) :

read the narrowpeak format from MACS software into GRangesList object.
● Data Source: BioConductor
● Keywords:
● Alias: narrowPeaktoGRanges
● 0 images