vtools remove variants does not work for hdf5

[BoPeng]

The syntax is vtools remove variants TABLE where TABLE is a variant table. In sqlite, the implementation is something like (code]

DELETE FROM genotype_2 WHERE variant_id IN (SELECT variant_id from TABLE)

Not sure what API to use though because all the IDs should be passed to HDF5.

[jma7]

It seems the remove of variants, samples and genotypes are not reversible? Is this the ideal way? How about use a column to mark the visibility?

[BoPeng]

It is certainly ok as long as that does not affect the performance of retrieving genotype (variant) etc.