nullarbor
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tseemann
:floppy_disk: :page_with_curl: "Reads to report" for public health and clinical microbiology
Hi Torsten, Thanks for making Nullarbor - we really like it. A small suggestion - we spent a while this week trying to figure out why Nullarbor was quietly dying...
Hello. We have become very excited about Nullarbor, and especially the report. I wondered if it would be somehow possible to the isolate set part of the pipeline. That is,...
Hi, Kraken2 database has been updated and the current link `wget ftp://ftp.ccb.jhu.edu/pub/data/kraken2_dbs/minikraken2_v2_8GB_201904_UPDATE.tgz` on the nullarbor page does not work. This is the new link: `ftp://ftp.ccb.jhu.edu/pub/data/kraken2_dbs/minikraken_8GB_202003.tgz` Thanks! Hena
It is described in the documentation that one can reuse contigs across nullarbor runs by using the prefill option, such that {ID} is substituted with the ID of each sample....
Hi, We are running Nullarbor on a mixture of samples we sequenced ourselves, and some downloaded from ENA. When we run, we don't get a final report. Looking more closely,...
Hi tseemann, I'm wondering why is the mlst database blank. I did get the mlst result so I am assuming it was from the mlst/db/...  Thanks,...
Run on all Then use ST (or other feature) to create subfolders and sub runs with master index.html
Commenting out samples of the input file does not force a rerun of Roary.
Hi, tseemann, Have you ever seen this tormes, which is very similar to nullarbor. https://github.com/nmquijada/tormes Best regards Chao
HI Torst, Great to see a multisample VCF now - would be great to have indels in there too, or in a separate multisample VCF. Ta, Liam
