colDescriptions | R Documentation |
Get column descriptions of SRAmetadb.sqlite, including table, field, field data type, description and default values
colDescriptions( sra_con )
sra_con |
Connection of the SRAmetadb SQLite database |
A seven-column data.frame including table_name, field_name, type, description, value_list.
Jack Zhu<zhujack@mail.nih.gov> and Sean Davis <sdavis2@mail.nih.gov>
## Using the SRAmetadb demo database
library(SRAdb)
sra_dbname <- file.path(system.file('extdata', package='SRAdb'), 'SRAmetadb_demo.sqlite')
sra_con <- dbConnect(dbDriver("SQLite"), sra_dbname)
## Get column descriptions
a <- colDescriptions(sra_con=sra_con)[1:5,]
## The actual SRAmetadb sqlite database can be downloaded using function: getSRAdbFile. Warning: the actual SRAmetadb sqlite database is pretty large (> 35GB as of May, 2018) after uncompression. So, downloading and uncompressing of the actual SRAmetadb sqlite could take quite a few minutes depending on your network bandwidth. Direct links for downloading the SRAmetadb sqlite database: https://s3.amazonaws.com/starbuck1/sradb/SRAmetadb.sqlite.gz https://gbnci-abcc.ncifcrf.gov/backup/SRAmetadb.sqlite.gz
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