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 |
getSRA |
Fulltext search SRA meta data using SQLite fts3 module |
getSRAdbFile |
Download and unzip last version of SRAmetadb.sqlite.gz from the server |
getSRAfile |
Download sra or sra-lite data files associated with input SRA accessions from NCBI SRA ftp site |
getSRAinfo |
Get file size and date from NCBI ftp site for available sra or sra-lite data files associated with input SRA accessions |
IGVclear |
Clear IGV tracks loaded. |
IGVcollapse |
Collapse tracks in the IGV |
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. |
IGVsocket |
Create a Socket Connection to IGV. |
IGVsort |
Sort an alignment track by the specified option. |
listSRAfile |
List sra/sra-lite data 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 |