Count Matrix from quant.genes.sf files
Hello everyone,
I am having trouble understanding something and would appreciate any help or even a tutorial on this if someone can link it.
I got 20 Bulk RNA samples sequenced and the bioinformatics core gave me 20 quant.genes.sf files obtained through DRAGEN RNA pipeline. I need to generate a count matrix from these to use for a GSEA analysis. I have read tutorials on how to use tximport but those require quant.sf files or transcriptomic quantification
How can I use quant.genes.sf files to generate a count matrix ? It has the same columns as a quant.sf file e.g (Length, Effective Length, TPM, Num Reads)
Thank you !
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