The Reference Data Manager
The `References' data manager launch button is located in the top right corner of the workbench (figure 1.8).
Figure 1.8: The References data manager launch button in the top right corner of the Workbench.
Single Cell data in Reference Manager
The single cell data sets for Human and Mouse are called Single Cell hg38 (Ensembl) and Single Cell Mouse (Ensembl), respectively, and can be found among the QIAGEN sets, see figure 1.9.
Figure 1.9: The Single Cell reference data set located in the QIAGEN Sets tab.
The reference data sets contain:
- The reference sequence, gene track, and mRNA track, used for mapping scRNA-Seq data.
- A pre-trained classifier with cell types from QIAGEN Cell Ontology (see The QIAGEN Cell Ontology) to use when predicting cell types or training with more cell types.
- A gene ontology that can be used together with differential expression data to analyze GO terms.
- Reference V (variable), D (diversity), J (joining) and C (constant) gene segments, used for mapping scTCR-Seq data.
- A peak shape filter used for calling scATAC-Seq peaks.