SCP Support
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Activity overview
Latest activity by SCP Support-
SCP Support created an article,
Pre-computed differential expression (DE)
If you have differential expression results, you can upload pre-computed differential expression results to your study. Expression results can be pairwise comparisons or "One vs rest" results. If y...
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SCP Support commented,
Official comment Collapsing a multi-gene query by mean or median into a violin plot means that we take either the mean (or median) expression value of all genes in the query for every cell in the current clustering...
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SCP Support commented,
Official comment Because dot plots represent two axes of information for each dot - scaled mean expression and the percentage of cells expressing for that gene and annotation - when you export to a flat GCT file yo...
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SCP Support created an article,
Bookmarks
Single Cell Portal enables the discovery and exploration of many datasets. Upon visiting SCP, you may find an interesting view of the data you'd like to return to or share with a colleague. Or you ...
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SCP Support commented,
Official comment Thanks for your interest in SCP datasets. Public data in Single Cell Portal (SCP) can be downloaded through SCP's APIs or through the UI in accordance with the standard access available to all user...
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SCP Support commented,
Official comment Guarav - Thanks for writing in with this. It is possible to request a 1-day exemption for the download quota in order to export very large datasets. If you email the help desk (scp-support@broadi...
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SCP Support created an article,
Upload data in AnnData mode
How to upload AnnData during study creation The following guide assumes you have chosen the AnnData upload experience. Step 1. Fill in the "Expression matrices" form fields Select the species for ...
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SCP Support created an article,
Spatial transcriptomics
Spatial transcriptomics visualizations are normal scatter plots that show how cells are arranged in 2d physical space, rather than how they may cluster by similarity based on an analysis. SCP allo...
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SCP Support created an article,
Exploratory differential gene expression analysis
Exploratory differential expression (DE) analysis can be performed in Single Cell Portal to look for genes that drive differences between distinctly annotated clusters of cells in a study. For exam...
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SCP Support created an article,
Key study files depend on unique NAMEs to enable visualizations
Single Cell Portal generates visualizations using information from three key study files: processed matrix, metadata and cluster files. This article covers: NAME Metadata file Cluster/spatial file...