filterGenes {Starr} | R Documentation |
This fucntion filters genes and other annotated features with respect to length, ovelaps and distance to other features.
filterGenes(gffAnno, distance_us=500, distance_ds=500, minLength=-Inf, maxLength=Inf)
gffAnno |
a data frame containing the annotation |
distance_us |
how many basepairs upstream to the feature should not overlap with other features. |
distance_ds |
how many basepairs downstream to the feature should not overlap with other features. |
minLength |
minimal length of the feature |
maxLength |
maximal length of the feature |
a character vector with the names of the features, that passed the filter.
Benedikt Zacher zacher@lmb.uni-muenchen.de
## # dataPath <- system.file("extdata", package="Starr") # transcriptAnno <- read.gffAnno(file.path(dataPath, "transcriptAnno.gff"), feature="transcript") # filtered_transcripts <- filterGenes(transcriptAnno, distance_us = 0, distance_ds = 0, minLength = 1000)