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Results tagged with 10x-genomics
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user 64
3
votes
Accepted
Why do I have >10,000 cells in the 10X matrix produced by cellranger?
The raw data from cell ranger contains all of the barcodes detected in the experiment. These raw barcodes are filtered by cell ranger to identify the barcodes that likely represent cells rather than …
- 752
4
votes
Single-cell sequencing dataset has too many barcodes
The BAM file you downloaded has all of the detected 10X barcodes instead of those that represent cells. In a given 10X experiment the number of input barcodes vastly outnumbers the input cell count. …
- 752
1
vote
Handling sample identity in aggregated 10x libraries?
You have to keep track of the file order you used for aggr. The suffix number represents which represents the aggregated sample. You could store this information in a text file and load it into R ind …
- 752