singleTIDSeq: Get protein and gene sequences from T numbers
In YulongNiu/KEGG_API: A package for providing KEGG databases API in R
Description
Usage
Arguments
Details
Value
Author(s)
Description
KEGG Database Additional API - Get nucleotide acid and amino acid sequences according to the T numbers
Usage
1
singleTIDSeq(TID, seqType = "aaseq")
Arguments
TID
The T number ID for the protein or gene.
seqType
Choose nucleotide acid ('ntseq') or amino acid ('aaseq') seqences, and the default is amino acid sequences.
Details
Get protein and gene sequences from KEGG T number in fasta format. As there is no direct API for retrieving the sequence from T number, for example "T10017:100009". The fasta sequence is extract from a webpage like "http://www.genome.jp/dbget-bin/www_bget?-f+-n+a+t10017:100009". The function singleTIDSeq() get a sequence one time, and the function getKEGGTIDGeneSeq() provides a parallel way to download sequences.
Value
A BStringSet
Author(s)
Yulong Niu niuylscu@gmail.com
YulongNiu/KEGG_API documentation built on May 10, 2019, 1:12 a.m.
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Description Usage Arguments Details Value Author(s)
Description
KEGG Database Additional API - Get nucleotide acid and amino acid sequences according to the T numbers
Usage
1 | singleTIDSeq(TID, seqType = "aaseq")
|
Arguments
TID |
The T number ID for the protein or gene. |
seqType |
Choose nucleotide acid ('ntseq') or amino acid ('aaseq') seqences, and the default is amino acid sequences. |
Details
Get protein and gene sequences from KEGG T number in fasta format. As there is no direct API for retrieving the sequence from T number, for example "T10017:100009". The fasta sequence is extract from a webpage like "http://www.genome.jp/dbget-bin/www_bget?-f+-n+a+t10017:100009". The function singleTIDSeq() get a sequence one time, and the function getKEGGTIDGeneSeq() provides a parallel way to download sequences.
Value
A BStringSet
Author(s)
Yulong Niu niuylscu@gmail.com
R Package Documentation
Browse R Packages
We want your feedback!
Note that we can't provide technical support on individual packages. You should contact the package authors for that.
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