Nicole Lerminiaux

POLCA fails to generate .vcf file

3

Hi there, I'm running Masurca v4.0.9 and am having an issue using POLCA to polish a Flye assembly with Illumina reads where it prints the following error: ``` polca.sh -t...

Updating version support for starmar, amrfinderplus, kmerresistance - summarize output breaks

4

Hi there, Appreciate the time taken to build and maintain this tool! **Describe the bug** I ran `hamronize summarize` on hamronize reports from four tools (abricate, staramr, amrfinderplus, kmerresistance). Summarize...

Hello, I updated my databases in v0.10.0 with `staramr db update --update-default`. I noticed there are some new entries in the PointFinder database which have a different naming structure which...

different percent identity/alignment length for identical sequences on opposite strands

5

Hello, I've come across an odd discrepancy - I have a plasmid with two copies of qacE gene (X68232) on opposite strands and I'm getting differing percent identity/alignment length to...

CGE phenotype not populated for E. faecium pbp5 when all essential mutations are present

1

Hello, I have two Enterococcus faecium assemblies that I have run through staramr v0.10.0 using the default databases with `--pointfinder-organism enterococcus_faecium --pid-threshold 90` . Assembly1 has all 19 pbp5 mutations...