Genome sequencing project metadata


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Documentation for package ‘genomes’ version 2.16.1

Help Pages

%like% Pattern matching using wildcards
doublingTime Doubling time for genome projects
efetch Entrez database downloads
einfo Entrez database information
elink Entrez database links
esearch Entrez database search
esummary Entrez database summaries
euks Eukaryotic genomes at NCBI
ftpList List FTP files and directories
genomes Introduction to the genomes package
genomes-lines Add lines to a genomes plot
genomes-plot Genome table plots by release date
genomes-summary Genome table summaries
genomes-update Genome table updates
genus Extract the genus name
image2 Display a matrix image
like Pattern matching using wildcards
lines.genomes Add lines to a genomes plot
month Parse a date string
ncbiGenome NCBI Genome links to the Nucleotide database
ncbiNucleotide NCBI Nucleotide database
ncbiProject NCBI BioProject database
ncbiPubmed NCBI PubMed database
ncbiRelease NCBI revision history
ncbiSubmit NCBI submission dates
ncbiTaxonomy NCBI taxonomy database
plot.genomes Genome table plots by release date
plotby Plot groups of genomes by release date
print.genomes Print genome tables
proks Prokaryotic genomes at NCBI
read.genemark Read a GeneMark output file
read.gff Read a GFF file from NCBI
read.glimmer Read a Glimmer output file
read.ncbi.ftp Read files from the NCBI genomes FTP
read.prodigal Read a Prodigal gene finding output file
read.ptt Read a NCBI protein or RNA feature table
species Extract the species name
summary.genomes Genome table summaries
table2 Format and sort a contigency table
update.genomes Genome table updates
virus Virus genomes at NCBI
year Parse a date string