# A compilation of metadata from NCBI SRA and tools

## Documentation for package ‘SRAdb’ version 1.2.1

- DESCRIPTION file.
- Overview of user guides and package vignettes; browse directory.
- Package NEWS.

## Help Pages

SRAdb-package | Query NCBI SRA metadata within R or from a local SQLite database
colDescriptions | Get column descriptions of SRAmetadb.sqlite
entityGraph | Create a new graphNEL object from an input entity matrix or data.frame
getFastq | Download fastq files associated with input SRA accessions from NCBI SRA ftp site
getFastqInfo | Get file size and date from NCBI ftp site for available fastq files associated with input SRA accessions
getSRA | Fulltext search SRA meta data using SQLite fts3 module
getSRAdbFile | Download and unzip last version of SRAmetadb.sqlite.gz from the server
IGVgenome | Set the IGV genome.
IGVgoto | Go to a specified region in IGV.
IGVload | Load data into IGV via remote port call.
IGVsession | Create an IGV session file
IGVsnapshot | Make a file snapshot of the current IGV screen.
IGVsnapshotDirectory | Set the directory to which IGV will save snapshots.
listFastq | List fastq file names associated with input SRA accessions
sraConvert | Cross-reference between GEO data types
SRAdb | Query NCBI SRA metadata within R or from a local SQLite database
sraGraph | Create a new graphNEL object of SRA accessios from SRA full text search
startIGV | Start IGV from R with different amount maximum memory support