problems in running multiple mapping with tophat

YangLab / CIRCexplorer

A combined strategy to identify circular RNAs (circRNAs and ciRNAs) (Zhang et al., Complementary Sequence-Mediated Exon Circularization, Cell (2014), 159:134-147)

http://yanglab.github.io/CIRCexplorer

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problems in running multiple mapping with tophat #18

Closed AliceYu0911 closed 5 years ago

AliceYu0911 commented 5 years ago

according to the instruction, I do multiple mapping with tophat using the format tophat2 -a 6 --microexon-search -m 2 -p 10 -G knownGene.gtf -o tophat hg19_bowtie2_index RNA_seq.fastq the program went wrong, and show error information: error retrieving prep-reads info

what does that mean? how can I solve it? please help!

kepbod commented 5 years ago

This is the problem of tophat but not circexplorer.