Files

opencga.sh files

Upload

Upload a physical local file to one specific study in OpenCGA.

Name	Usage
-i --input	Input file
-s --study	Study [[user@]project:]study where study and project can be either the ID or UUID
--catalog-path	Path within catalog where the file will be located
--file-name	Name of the file by which it will be stored in catalog
--description	Description of the file
--bioformat	Bioformat of the file (VARIANT, ALIGNMENT, SEQUENCE, PEDIGREE...NONE)
--file-format	Format of the file (VCF, BCF, GVCF, SAM, BAM, BAI...UNKNOWN)