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REQUIRED. Values MUST be de-duplicated molecule counts. All non-zero values MUST be positive integers stored as numpy.float32.
If uns['spatial']['is_single'] is False then each cell MUST contain at least one non-zero value.
If uns['spatial']['is_single'] is True then the unfiltered feature-barcode matrix (raw_feature_bc_matrix) MUST be used. See Space Ranger Feature-Barcode Matrices. This matrix MUST contain 4992 rows. If the obs['in_tissue'] value is 1, then the cell MUST contain at least one non-zero value. If any obs['in_tissue'] values are 0, then at least one cell corresponding to a obs['in_tissue'] with a value of 0 MUST contain a non-zero value.
AnnData.raw.X unless no "normalized" is provided, then AnnData.X
STRONGLY RECOMMENDED
AnnData.X
The text was updated successfully, but these errors were encountered:
brianraymor
changed the title
cellxgene-schema must update validation in X (Matrix Layers)
cellxgene-schema CLI must update validation in X (Matrix Layers)
Mar 27, 2024
Design
See X (Matrix Layers).
numpy.float32
.If
uns['spatial']['is_single']
isFalse
then each cell MUST contain at least one non-zero value.If
uns['spatial']['is_single']
isTrue
then the unfiltered feature-barcode matrix (raw_feature_bc_matrix
) MUST be used. See Space Ranger Feature-Barcode Matrices. This matrix MUST contain 4992 rows. If theobs['in_tissue']
value is1
, then the cell MUST contain at least one non-zero value. If anyobs['in_tissue']
values are0
, then at least one cell corresponding to aobs['in_tissue']
with a value of0
MUST contain a non-zero value.AnnData.raw.X
unless no "normalized" is provided, thenAnnData.X
AnnData.X
The text was updated successfully, but these errors were encountered: