Jaswinder Singh

This might help https://github.com/mhamilton723/STEGO/issues/11#issuecomment-1120406390

Hi Yan, The threshold was determined by maximizing the Matthews Correlation Coefficient (MCC) on validation set (VL1). MCC was calculated for 1000 values between 0 and 1 at sampling rate...

Hi @Gil-TakKong I think, background can ignored by passing `class_indexes` argument to the `sm.metrics.IOUScore()` function. For example, to ignore background during IoU evaluation (for 3 classes `CLASSES = ['sky', 'building',...

Hi, If you change `path_blastn_database=/data/amax83t/Databases/ncbi_nt` to `path_blastn_database=/data/amax83t/Databases/ncbi_nt/nt`, then it should fix this problem. Jaswinder

Yeah, both formatted database files (`*.nhr, *.nin *.nsq`) and the original database file (`nt`) should be in the `/data/amax83t/Databases/ncbi_nt/` directory. Formatted database files (`*.nhr, *.nin *.nsq`) are used by BLAST-N...

Is it possible to share the input sequence or .sto alignment file to reproduce the error?

Okay, no worries. I am looking into SPOT-RNA2 code and update you soon. If possible, can you please share files in `sample_run/6ufj_features` folder?

Hi, It is hard for me to figure out this problem with the provided information. One reason may be nt.gz file is not downloaded completely as it is a huge...