Albert Vill

genomecov -d and -3/-5 options are incompatible, but no error is given

2

Thank you for maintaining bedtools. It's really excellent software. An [old post on Biostars](https://www.biostars.org/p/80236/#80236) suggests using the following command to count coverage at the 5' ends of reads: bedtools genomecov...

Tools param (-t) breaks run_dbcan v2.0.11

2

I've found an issue with run_dbcan 2.0.11. Adding the optional `-t all` parameter causes the program to break. Exclusion of `-t` results in the correct output using the provided test...

portions of repeats annotated as spacers

2

**Preface**: Thanks for creating and maintaining minCED! I use your software often and rely on its output for [my own tools](https://github.com/acvill/CRISPRviewR/#background). I understand this issue is likely a problem with...