alantsangmb

possibility to call mixed bases ?

1

Hello, I am trying medaka implemented in wf-artic to do CoV WGS. Just wondering whether medaka could call mixed bases when a minor variant exceed a certain frequency threshold? For...

approach to classify mutations

5

Hello~ I have used clockwork to generate final.vcf files using the script only approach. Any advises or tools I can adopt to further analyze the final.vcf files? I would like...

lineage - how it works?

1

I have a question regarding how tbprofiler assigns lineages. I understand that lineages are determined by identifying lineage-specific SNPs. However, I am not familiar with the specific details or algorithm...

** Please provide a justification of adding/removing the mutation along along with the following essential information. Gene: pncA Mutation: p.Val21Ala Literature Evidence: This mutation is group 4) Not assoc w...

inconsistent who_confidence

1

In the tbdb.other_annotations.csv file, I found that different who_confidence were assigned to the same mutation in the same gene. The following are the examples I spotted: Gene Mutation Type Info...

inconsistency between Resistance report and Resistance variants report

2

Hi @jodyphelan I noticed some inconsistency between the Resistance report and the Resistance variants report. Specifically, for my attached result generated from v6.2.1, the pncA p.Val21Ala is listed as "Not...

Missing position

1

Hi, I have asked the same question in issue#164. However, I am afraid that question was missed, so I am opening another issue. I apologize for the repeated question. However,...