NCBI_BLAST_XML2DT: Converts NCBI BLAST XML result file into an R data.table.

In YoannPa/NCBI.BLAST2DT: Submit DNA sequences to NCBI BLAST and get results in an R data.table.

Converts NCBI BLAST XML result file into an R data.table.

Description

Converts NCBI BLAST XML result file into an R data.table.

Usage

NCBI_BLAST_XML2DT(xml_file)

Arguments

xml_file

A character specifying the path to a XML file containing NCBI BLAST results. Such XML file can either be: downloaded directly from the NCBI BLAST result page. retrieved from the result directory you specified when using submit_NCBI_BLAST. generated using blastSeq() function from the R package hoardeR.

Value

A data.table of the NCBI BLAST results.

Author(s)

Yoann Pageaud.

References

• The Statistics of Sequence Similarity Scores.

• hoardeR: Collect and Retrieve Annotation Data for Various Genomic Data Using Different Webservices.

• xml2: Parse XML.

Examples

NCBI_BLAST_XML2DT(xml_file = "path/to/my/ncbi_blast_result.xml")

YoannPa/NCBI.BLAST2DT documentation built on Sept. 14, 2024, 2:30 a.m.