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@@ -37,7 +37,7 @@ Included is the code necessary to replicate the Seurat or LIGER (or both) object
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## Data
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### Original Data
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The data in this project can be broadly divided into 2 categories (7 sub-projects). Please see [SI Table 1 & 2](ADD_NEW_LINK) (SI Table 1: Mouse Experiments 1-4) and (SI Table 2; Human Experiments 4-7 & Human Literature Reanalysis) for breakdown by sample, metadata, and more information.
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The data in this project can be broadly divided into 2 categories (7 sub-projects). Please see [SI Table 1 & 2](LINK_TBD) (SI Table 1: Mouse Experiments 1-4) and (SI Table 2; Human Experiments 4-7 & Human Literature Reanalysis) for breakdown by sample, metadata, and more information.
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***A brief overview with links to the raw data (fastqs) and processed data (Cell Ranger `count` Gene Expression Matrices) see table below***
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| Experiment | Species | Seq Used | Description | Raw/Count Data |
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All proceesed data files represent the output from Cell Ranger `count`. Files provided are the "*filtered_feature_bc_matrix*" (i.e. only containing the barcodes that Cell Ranger called as cells during preprocessing). Information on Cell Ranger version and Genome/Annotation for each experiment can be found in [SI Table 1 & 2](UPDATE_LINK) as well as individual repository meta data.
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All proceesed data files represent the output from Cell Ranger `count`. Files provided are the "*filtered_feature_bc_matrix*" (i.e. only containing the barcodes that Cell Ranger called as cells during preprocessing). Information on Cell Ranger version and Genome/Annotation for each experiment can be found in [SI Table 1 & 2](LINK_TBD) as well as individual repository meta data.
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**Experiments 1-4, 5 (NCBI GEO)**
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There are 3 processed data files per library:
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### Human Data Reanalysis Meta Data
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Meta data for human data was assembled from published SI Tables, public data on synapse, or restricted access data on synapse
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- Compiled publicly available meta data variables for each human dataset can be found in [SI Table 2](UPDATE LINK).
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- Compiled publicly available meta data variables for each human dataset can be found in [SI Table 2](LINK_TBD).
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- "DUC" in the table indicates data available from synapse following submission and approval of Data Use Certificate.
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