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DESCRIPTION
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Package: reorientateCircGenomes
Type: Package
Title: Processing, reorientation and visualization of circular genomes
Version: 0.0.0.9000
Authors@R: c(
person("Sonja", "Koppenhöfer", email = "[email protected]", role = c("aut", "cre")))
Description: This package can process gff file types, derived from NCBI or Prokka and reorientate those, as well as genomic sequence file types in fna formate, based on a ProteinID or base pair position. Thereby the package can be used to adjust the circular chromosome on an origin of replication. The gff and fna files can then be used to generate a circular visualisation of a selected replicon e.g. the chromosome, including the GC skew and indication of the location of regulators of interest.
Depends: R (>= 3.1.3)
Imports: Biostrings (>= 2.58.0), BSgenome (>= 1.58.0), tidyverse (>= 1.3.1), ggbio (>= 1.38.0), GenomeInfoDb (>= 1.26.7), GenomicRanges (>= 1.42.0), devtools (>= 2.4.1)
URL: https://github.com/SonjaElena/reorientateCircGenomes
BugReports: https://github.com/SonjaElena/reorientateCircGenomes/issues
Encoding: UTF-8
LazyData: true
RoxygenNote: 7.1.1.9001