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 |