Package: FScanR
Type: Package
Title: Detect Programmed Ribosomal Frameshifting Events from mRNA/cDNA
        BLASTX Output
Version: 1.2.0
Authors@R: c(
       person("Xiao", "Chen", email = "seanchen607@gmail.com", role = c("aut", "cre"), comment = c(ORCID = "0000-0001-5059-8846"))
       )
Description: 'FScanR' identifies Programmed Ribosomal Frameshifting (PRF) events from BLASTX homolog sequence alignment 
    between targeted genomic/cDNA/mRNA sequences against the peptide library of the same species or a close relative. 
    The output by BLASTX or diamond BLASTX will be used as input of 'FScanR' and should be in a tabular format with 14 columns. 
    For BLASTX, the output parameter should be: -outfmt '6 qseqid sseqid pident length mismatch gapopen qstart qend sstart send evalue bitscore qframe sframe'.
    For diamond BLASTX, the output parameter should be: -outfmt 6 qseqid sseqid pident length mismatch gapopen qstart qend sstart send evalue bitscore qframe qframe.
License: Artistic-2.0
Encoding: UTF-8
Depends: R (>= 4.0)
Imports: stats
Suggests: knitr, rmarkdown
VignetteBuilder: knitr
BugReports: https://github.com/seanchen607/FScanR/issues
biocViews: Alignment, Annotation, Software
RoxygenNote: 7.1.1
git_url: https://git.bioconductor.org/packages/FScanR
git_branch: RELEASE_3_13
git_last_commit: 95f349c
git_last_commit_date: 2021-05-19
Date/Publication: 2021-05-19
NeedsCompilation: no
Packaged: 2021-05-20 00:09:44 UTC; biocbuild
Author: Xiao Chen [aut, cre] (<https://orcid.org/0000-0001-5059-8846>)
Maintainer: Xiao Chen <seanchen607@gmail.com>
Built: R 4.1.0; ; 2021-05-20 08:10:58 UTC; windows
