parseSplicingEvent: Parse alternative splicing event identifier

In nuno-agostinho/psichomics: Graphical Interface for Alternative Splicing Quantification, Analysis and Visualisation

Parse alternative splicing event identifier

Description

Parse alternative splicing event identifier

Usage

parseSplicingEvent(
  event,
  char = FALSE,
  pretty = FALSE,
  extra = NULL,
  coords = FALSE,
  data = NULL
)

Arguments

event	Character: event identifier
char	Boolean: return character vector instead of list with parsed values?
pretty	Boolean: return a prettier name of the event identifier?
extra	Character: extra information to add (such as species and assembly version); only used if pretty = TRUE and char = TRUE
coords	Boolean: display extra coordinates regarding the alternative and constitutive regions of alternative splicing events? Only used if char = FALSE
data	Matrix or data frame: alternative splicing information

Value

Data.frame containing type of event, chromosome, strand, gene and position of alternative splicing events or character with that same information (depending on what is available)

Examples

events <- c(
  "A3SS_15_+_63353138_63353912_63353397_TPM1",
  "A3SS_11_-_61118463_61117115_61117894_CYB561A3",
  "A5SS_21_+_48055675_48056459_48056808_PRMT2",
  "A5SS_1_-_1274742_1274667_1274033_DVL1",
  "AFE_9_+_131902430_131901928_131904724_PPP2R4",
  "AFE_5_-_134686513_134688636_134681747_H2AFY",
  "ALE_12_+_56554104_56554410_56555171_MYL6",
  "ALE_8_-_38314874_38287466_38285953_FGFR1",
  "SE_9_+_6486925_6492303_6492401_6493826_UHRF2",
  "SE_19_-_5218431_5216778_5216731_5215606_PTPRS",
  "MXE_15_+_63335142_63335905_63336030_63336226_63336351_63349184_TPM1",
  "MXE_17_-_74090495_74087316_74087224_74086478_74086410_74085401_EXOC7")
parseSplicingEvent(events)

nuno-agostinho/psichomics documentation built on Feb. 11, 2024, 11:16 p.m.