-d, --destination <ClcServerObjectUrl> |
Destination file or folder on server. |
--discard-failed-reads <Boolean> |
Remove failed reads (default: true) |
--discard-quality-scores <Boolean> |
Discard quality scores (default: false) |
--discard-seq-names <Boolean> |
Discard sequence names (default: false) |
-f <ClcFileUrl> |
Selected files |
--illumina-trim <Boolean> |
Illumina trim (default: false) |
--log <Boolean> |
Enable creation of algo log file. (default: true) |
--max-distance |
|
Integer: >= 0 |
maximum distance (default: 1000) |
--min-distance |
|
Integer: >= 0 |
minimum distance (default: 1) |
--miseq-demultiplexing <Boolean> |
MiSeq de-multiplexing (default: false) |
--paired-reads <Boolean> |
Paired-end reads (default: false) |
--quality-score <[SANGER, ILLUMINA_OLD, ILLUMINA_PHRED, ILLUMINA_TRIM]> |
Quality score (default: SANGER) |
--read-orientation <[FORWARD_FORWARD, FORWARD_REVERSE, REVERSE_REVERSE, REVERSE_FORWARD, UNKNOWN]> |
Read orientation (default: FORWARD_REVERSE) |
