Genome sequencing project metadata


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Documentation for package ‘genomes’ version 1.8.1

Help Pages

%like% Pattern matching using wildcards
acc2date Retrieve release dates from NCBI's revision history
doublingTime Doubling time for genome projects
genomes Introduction to the genomes package
genomes-lines Add lines to a genomes plot
genomes-plot Genome table plots by release date
genomes-subset Subset genome tables
genomes-summary Genome table summaries
genomes-update Genome table updates
genus Extract the genus name
image2 Display a matrix image
lenvs Metagenome sequencing projects at NCBI
leuks Eukaryotic genome projects at NCBI
like Pattern matching using wildcards
lines.genomes Add lines to a genomes plot
lproks Microbial genome projects at NCBI
month Parse a date string
plot.genomes Genome table plots by release date
plotby Plot groups of genomes by release date
print.genomes Print genome tables
pub2date Retrieve the published date from NCBI's PubMed database
pubmed Complete microbial genome publications in PubMed
revhist Complete microbial genome release dates in Revision History
species Extract the species name
subset.genomes Subset genome tables
summary.genomes Genome table summaries
table2 Format and sort a contigency table
taxid2names Retreive taxonomy names from NCBI
term2neighbor Retrieve genome neighbors from NCBI
term2summary Retrieve genome summaries from NCBI
top Find the most common values
update.genomes Genome table updates
virus Virus genomes at NCBI
year Parse a date string