Data Files Before 2018

RNA-Seq data released in October 2017 differed from 2018 data in the following ways:

1. Alignment and quantification algorithms used for mouse data in 2018 used STAR instead of bowtie + RSEM.

2. Gene expression is presented for introns as well as exons, and is not scaled by transcript length, with CPM quantification replacing FPKM and TPM quantification.

3. Metadata values for each cell or nucleus were updated. Most notably, the cell type classification has been updated for mouse LGd, and is provided for other data sets.

4. The RNA-Seq heatmap for LGd has been deprecated, and replaced with a richer analysis tool, the RNA-Seq Data Navigators for human and mouse. A detailed description of how this archived data was processed is described in the technical whitepapers, in Documentation.

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Reference genome files