TopHat-Fusion ERROR with chr number
The top_dir structure of TopHat-Fusion contains ensGene.txt ensGtp.txt and so on. I have some spike-in reads and these reads cannot be found in those files. The error information shows
“File "/ifs/USER/tool/tophat-2.0.12.Linux_x86_64/tophat-fusion-post", line 347, in gene_exists
if chr_order[chr] < chr_order[ref_chr]:"
The result.txt file cannot be generated either. What should I do to deal with this problem?
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