Reference Code backup Executable files
Convert SRA data into Illumina native formats (qseq, etc.)
illumina-dump [options] <accession>
General: | ||||
-h | | | --help | Displays ALL options, general usage, and version information. | |
-V | | | --version | Display the version of the program. | |
Data formatting: | ||||
-A | | | --accession |
Replaces accession derived from |
|
-x | | | --qseq <1|2> | Output QSEQ format: whole spot (1) or split by reads (2). | |
Filtering: | ||||
-N | | | --minSpotId |
Minimum spot id. | |
-X | | | --maxSpotId |
Maximum spot id. | |
-G | | | --spot-group | Split into files by spot group ("read group"). | |
Workflow and piping: | ||||
-O | | | --outdir |
Output directory, default is working directory ('.'). | |
-Z | | | --stdout | Output to stdout, all split data becomes joined into a single stream. | |
--gzip | Compress output using gzip. | |||
--bzip2 | Compress output using bzip2. |