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10XGenomics / cellranger

10x Genomics Single Cell Analysis
https://www.10xgenomics.com/support/software/cell-ranger
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How can I convert a barcoded bam to read count matrix? #61

Closed biobug16 closed 4 years ago

biobug16 commented 4 years ago

Hi @evolvedmicrobe and all, I am new with scRNA Seq analysis and just having a barcoded bam. I am not sure how should I convert this barcoded bam to a count matrix. I may be missing something. Any help to wards this will be highly appreciated. Thanks

evolvedmicrobe commented 4 years ago

If you don't have the original FASTQ files you'll have to back convert to FASTQ to run Cell Ranger, I'd contact support@10xgenomics.com for more help.