-
Hi,
I have run the AmpliconArchitect with following command "python2 AmpliconArchitect.py --ref None --downsample 10 --bed WGS000100002tumor_AACNVbed.bed --bam WGS000100002tumor.dup.reali…
-
Hello all,
For viral sequencing, often reference assembly is used to obtain the viral genome. In this case, it is useful to call a consensus sequence from the alignment. For Illumina data, this is …
-
Dear authors,
Thank you for awesome work and sharing it in very detailed manner.
I however think that the A20 antibody neutralization assay has an issue with the calculation of antibody selectio…
-
Hi! I am not sure if this is a question for nextclade or augur.
I am using `augur ancestral` as part of a pipeline to create a tree for use in a nextclade dataset: https://github.com/anna-parker/ma…
-
Greetings, I keep running into an issue with ref_seq_gb. I'm working with potential viral regions, and using the All_virus blast db as is (No additional sequences added), have you ran into this partic…
-
I've made customised database by using the code
kraken2-build --download-taxonomy --threads ${NSLOTS} --db kraken2_db2024
kraken2-build --download-library nt --threads ${NSLOTS} --db kraken2_db20…
-
I want to build a kraken database:
kraken2-build --standard --threads 24 --db krakendb
This line seems to work until this step:
Step1/2: performing rsync file transfer of requested files
T…
-
**Assignee:** Ali Haider Bangash
The first step is to identify what data could be integrated through a knowledge graph and what is available. What did the other Hackathon teams accomplish? What is …
-
At the statistical stage I am getting the error:
"statistics.StatisticsError: mean requires at least one data point"
It comes from line 758
avg_h = statistics.mean(cov_h)
I think it's becau…
-
Apparently Illumina uses the Q=2 quality score as a "Read Segment Quality Control Indicator". I can't find any recent mentions of this on Illumina's website. One document from 2011 describes it as:
>…