findSGVariants: Identify splice variants from splice graph

In ldg21/SGSeq: Splice event prediction and quantification from RNA-seq data

Description

Identify splice variants from splice graph.

Usage

findSGVariants(features, maxnvariant = 20, annotate_events = TRUE,
  include = c("default", "closed", "all"), cores = 1)

Arguments

features	SGFeatures object
maxnvariant	If more than maxnvariant variants are identified in an event, the event is skipped, resulting in a warning. Set to NA to include all events.
annotate_events	Logical indicating whether identified splice variants should be annotated in terms of canonical events. For details see help page for annotateSGVariants.
include	Character string indicating whether identified splice variants should be filtered. Possible options are “default” (only include variants for events with all variants closed), “closed” (only include closed variants) and “all” (include all variants).
cores	Number of cores available for parallel processing

Value

SGVariants object

Author(s)

Leonard Goldstein

Examples

sgv <- findSGVariants(sgf_pred)

ldg21/SGSeq documentation built on Oct. 14, 2020, 9:51 p.m.