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Trying to execute a simple cwl made with composer : bwa index > bwa mem
bwa index step completes and output is generated
bwa mem step doesnt start.
`sudo rabix-cli-1.0.3/rabix bwa_alignv1.cwl -- …
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I installed the package via Bioconductor and am running into the following issue.
I'm trying to use the match function and I currently can't get the package code example to run:
`location
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See https://gist.github.com/ctb/9deb40a68108256ab4fd84c6b8e92e01 for implementation.
cc @brooksph @taylorreiter
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Hi,
What is the difference between R vs r in the resistance report?
For example see Quinolones in the report below: Thanks.
Probe sets :tb-species-170421.fasta.gz,tb-walker…
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User [Daniel Kein](https://github.com/dankein) (daniel.kein@canada.ca) reports:
I can’t get the cgMLST schema for M. tuberculosis installed. M. tuberculosis is not present when I run the command: M…
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Good Morning @jokergoo
I'm trying to plot specific genes around the genomic density plot. I'm able to plot it but inside the initialised plot like this:
![moxi_uniq_list_trial](https://user-image…
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I'm getting a stackoverflow error at the snpeff build step.
My reference file is the Mycobacterium tuberculosis complete genome in genbank (full) format (downloaded from http://www.ncbi.nlm.nih.gov/…
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Hi, Thanks very much for adding the ability to start from a .bam file!
I assume that if I don't use the same reference version of the TB genome that you are assuming that all of the annotation …
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currently the following list of loci is described under the VCF predict page, this needs to be moved to the Manual predict page.
Also on the predict page the description of VCF prediction: "Minimal…
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AMR Annotation Modules (Option 2)
We will update the existing k-mer-based annotation software in PATRIC/RAST in order to propagate AMR-related annotations from ARDB, CARD, Resfams, and the manual anno…