Jean Chang
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Activity overview
Latest activity by Jean Chang-
Jean Chang created an article,
Filter plotted cells
"Filter plotted cells" allows the subsetting of visualized cells using multiple variables of interest to leverage rich metadata annotations provided by the study owner. Many single cell studies hav...
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Jean Chang created a post,
What is "scaled mean expression" in dot plots?
"scaled mean expression" gives a visual indicator of where each cell type's mean gene expression lands relative to the smallest and largest mean gene expression for the gene of interest across the ...
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Jean Chang commented,
Hi Mark Dwain, Apologies for not noticing this post earlier (usage of this "community" functionality is new to SCP!).Just to confirm, you're seeking to sort studies by # of cells on the home page -...
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Jean Chang commented,
Hi Yojet Sharma, Apologies for not noticing this post earlier (usage of this "community" functionality is new to SCP!).We have some example code for generating a Seurat object from SCP expression m...
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Jean Chang created a post,
Trouble with duplicate barcodes in your expression matrix?
We've posted an R notebook that shows how to use a user-contributed script to prepend a string to the NAMEs in a matrix and propagate that name change to a conventional SCP metadata file and cluste...
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Jean Chang created an article,
Add study to collection
How to add a study to a collection In order to add a study, the collection curator must either be the study owner or have been granted "edit" permission to access the study. 1. From the user menu...
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Jean Chang created an article,
Edit collection
Customizing and publishing collections Collections can be customized to reflect the style and iconography of the scientific group presenting the represented body of work. An external URL can be add...
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Jean Chang created an article,
Collections Overview
Single Cell Portal study collections Collections in Single Cell Portal present sets of studies that focus on a particular area of interest or represent a collection of studies from a particular res...
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Jean Chang created an article,
Legacy Metadata File Format
The legacy SCP metadata file format is a tab-delimited file with one required column and two required rows. Columns: The first column is required and contains cell names; one should include all c...
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Jean Chang created an article,
Adding large files with gcloud CLI
Single cell experiments can produce large analysis files (expression matrices, AnnData/Seurat files etc). Primary data, like FASTQ files, may also be large in file size or in number. High file coun...