whops / nahrwhals Goto Github PK

investigate.

bbmap is using a lot of space but only does one tiny step in the pipeline (split fasta file). Replace!

Dear author,

Thanks for developing this interesting tool! I've successfully tested on the demo data, but I got issues running the following command on my own assemblies.

I first tried the following command, but it gives me the unused arguments error.

nahrwhals(ref_fa='./T2T-CHM13v2.fasta',alt_fa='./HG00733.vkk.hap1.fasta',outdir='res',threads=10)

Then I found in your source code, the parameter is asm_fa instead of alt_fa as you used in README.md. Thus, I changed my code as below:

nahrwhals(ref_fa='./T2T-CHM13v2.fasta',asm_fa='./HG00733.vkk.hap1.fasta',outdir='res',threads=10)

However, I still got the unused arguments error.

Looking forward to your reply! Thanks!

Biostrings not available in package

NAHRwhals % Rscript install_package.R
Loading required package: devtools
Loading required package: usethis
Loading required package: argparse

Skipping 1 packages not available: Biostrings