Nicole Lerminiaux

For sure - those without headers have been run with the following command on a folder of multiple reports such as: `hamronize amrfinderplus amr_amrfinder/*.tsv --output hamronize_amrfinder --input_file_name amrfinderplus --analysis_software_version v3.11.14...

Re: `hamronize_test` - it looks like the header was repeated once for each input, output attached [hamronize_test.txt](https://github.com/pha4ge/hAMRonization/files/14640581/hamronize_test.txt) Re: json - the json file appears correct as far as I can...

Thanks for the reply, modifying that line as you suggested worked for me in v4.0.9

Thanks for the quick reply. I tried running with the `--report-all-blast` flag but am only getting one hit per gene copy in the output file. Does this suggest its an...

I will take a look at the flanking sequences. This is my output from running the above plasmids with `--verbose`: ``` 2023-10-10 11:48:58 DEBUG ResfinderHitHSP.__init__,25: record=qseqid qacE_1_X68232 sseqid p03A17005_A_consensus pident...

I am also experiencing this issue on a test set of 24000 recovered reads with dorado v0.7.2 running on Tesla V100S PCIe | model | basecalled reads | filtered |...

this improved results for me: |model | basecalled reads | filtered| |-- | -- | --| |[email protected] | 23976 | 24| |[email protected] | 23997| 4| |[email protected] | 24000 | 0|