Thank you very much. I was looking at the STARSolo documentation and it mentions so for multiple lanes.
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Aligning multiple runs using STARSolo
Hi all,
This question might be basic but it has gotten me confused. I download single cell RNASeq data for a sample from GEO using SRAtoolkit. As you can see here, this particular sample has 4 runs. So when running STARSolo using the following command, would it be right to comma-separate the runs ?
STAR --genomeDir ~/ngs/mm10_STARSolo --readFilesIn run1_R2,run2_R2,run3_R2 run1_R1,run2_R1,run3_R1 [...other parameters...]
Thanks
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1 answer
Please read the manual section 3.2: https://raw.githubusercontent.com/alexdobin/STAR/master/doc/STARmanual.pdf
Yes, comma separates multiple files.
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