Warning: Didn't find any variants in input

CSB5 / lofreq

LoFreq Star: Sensitive variant calling from sequencing data

http://csb5.github.io/lofreq/

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Open Ram-Nagar opened 2 years ago

Ram-Nagar commented 2 years ago

Hi There, I am using lofreq to the identification of CRISPR off-targets however when the lowfreq is throwing a warning in the end.

WARNING [2022-03-11 23:33:27,130]: uniq stderr: WARNING(lofreq_uniq.c|main_uniq): Didn't find any variants in input

I wandering what does it mean. No variations in the input files (CRSPR edited and wild type genotypes)??

Thanks

ej354 commented 11 months ago

Did you ever work this out? Thanks

andreas-wilm commented 11 months ago

If I remember correctly, then this means that LoFreq didn't find any variants in the "cancer" sample, so it has nothing to work with