I tried to process my PAR-CLIP dataset with PARalyzer version 1.5 (https://ohlerlab.mdc-berlin.de/software/PARalyzer_85/). While I could start running the program without any problem, at the final stage I always got an error as below:
Running PARalyzer v1.5
Parsing SAM file(s)…Done
Creating Read Groups & Clusters…Exception in thread “main” java.lang.Exception: * is not found in the .2bit file
I generated by 2bit file by faToTwoBit tools (e.g. faToTwoBit hg19.fasta hg19.2bit).
I really appreciate if you could have any input in this issue.