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YangLab / CLEAR

direct comparison of circular and linear RNA expression
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STAR bam files? #5

Closed zwardnz closed 4 years ago

zwardnz commented 4 years ago

Not an issue but I have used circexplorer2 for my analyses and would now like to upgrade. I tried running previous analysis starting from circexplorer2 output and bam files mapped with STAR (circ_quant). I don't get any expression of cognate linear RNA reads.

Am I able to do the analysis with STAR bam files???

xingma commented 4 years ago

Yes. CLEAR can be used to analyzed with STAR bam. For your problem, I think one possible reason is that the chromosome names are different between STAR bam file and the gene annotation file.