| Raw Counts | The unprocessed matrix of read or fragment counts per feature (e.g., gene or transcript) per cell or sample, prior to any normalization, scaling, or batch correction. | EDAM:data_3917 |
| Normalized Counts | A matrix of feature counts that has been adjusted (e.g., for sequencing depth or library size) to enable comparison across cells or samples. | EDAM:data_3112 |
| Scaled Counts | A matrix of counts that has been further transformed (e.g., centered and/or scaled to unit variance) after normalization, typically used as input for downstream analyses such as dimensionality reduction or clustering. | Not available |
| Batch Corrected Counts | A matrix of counts that has been adjusted to remove technical variation introduced by differences between sequencing batches or experimental runs, while preserving true biological signal. | Not available |