importTranscripts: Import transcripts from GFF file
In SGSeq: Splice event prediction and quantification from RNA-seq data

Import GFF file and generate a GRangesList of transcripts suitable as input for functions convertToTxFeatures or predictVariantEffects.

1	importTranscripts(file, tag_tx = "transcript_id", tag_gene = "gene_id")

`file`	Character string specifying input GFF file
`tag_tx`	GFF attribute tag for transcript identifier
`tag_gene`	GFF attribute tag for gene identifier

GRangesList of exons grouped by transcipts with metadata columns txName, geneName, cdsStart, cdsEnd.

Leonard Goldstein

## Not run: 
tx <- importTranscripts(file)

## End(Not run)
NULL

SGSeq documentation built on Nov. 8, 2020, 8:31 p.m.

SGSeq index

Splice event prediction and quantification from RNA-seq data

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