get_tx_seq: Get coding sequence of a transcript
In zhiyuanhu/masonmd: Make Sense of Nonsense-Mediated Decay

Description Usage Arguments Details Value

Get positions and junction for the coding sequence of a transcript

1	get_tx_seq(tx_pos, ncbi_build)

`tx_pos`	The positional information of transcipt from TxDB
`ncbi_build`	NCBI_build

Get the absolute positions on chromosomes for each nucleotide on the coding sequence for a given transcript; and indicate the exon-exon junctions in the coding sequence

A list containing two entries:

wt_pos numeric string; the absolute positions on chromosomes for each nucleotide on the coding sequence
exonJunction numeric string with 0 and 1; 1 represents the position of junctions

zhiyuanhu/masonmd documentation built on May 4, 2019, 11:22 p.m.