SeqmanBefore: prepare chip probe information(.txt) before seqman pipelin

In shijianasdf/BasicBioinformaticsAnalysisFromZhongShan: Launch Usual Clinical tool for Kind Yield

Description

When we want to annotate a chip with probe sequence,Seqman software is a good choice.Before use Seqman,a probe information should be prepared,which SeqmanBefore() can help do.

Usage

SeqmanBefore(eset, probe.id.col = "ID", sequence.col = "SEQUENCE",
  save.file = T, names = "test1")

Arguments

eset	an eset object containing feature data.
probe.id.col	the colname of the probe id
sequence.col	the colname of the sequence information
save.file	whether save results as rda
names	part of saved file name

Value

a .txt file containing probe ids and sequeces.

Author(s)

Weibin Huang<[e-mail]>

Examples

load("E:/RCloud/database/DataDownload/GEOqueryDownload/GSE17154/GSE17154_rawEset.rda")
probe.id.col="ID"
sequence.col = "SEQUENCE"
test1 = SeqmanBefore(eset,
                     probe.id.col,
                     sequence.col,
                     save.file=T,
                     names = "test1")

shijianasdf/BasicBioinformaticsAnalysisFromZhongShan documentation built on Jan. 3, 2020, 10:08 p.m.