findSGVariants: Identify splice variants from splice graph

Description Usage Arguments Value Author(s) Examples

View source: R/graphs.R

Description

Identify splice variants from splice graph.

Usage

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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

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ldg21/SGSeq documentation built on May 7, 2019, 9:37 a.m.