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## Motivating user story
John is interested in the hCoV-19 strains circulating in Washington State. He clicks the [base node of the primary Washington State clade to zoom into that phylogenetic con…
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I am running with `pangolin` version 1.1.4. After several tries with specific tempdirs `--tempdir xxx` I still can't find `lineage_report.csv` output file under `outdir`. Can it be that `pangolin` rem…
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The process ran for around 20 days and after that received an email quoting "We're sorry, there was an error processing your job".
Thanks
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* There are presently 34 SARS-COV-2 samples on NCBI generated on an Illumina platform: see https://trace.ncbi.nlm.nih.gov/
* There are a variety of approaches being taken to assemble or map these rea…
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It would be useful to include taxonomy information in pan-genome reference to enable analyses such as taxonomy-aware summaries of bowtie2 hits. Taxonomy descriptions are included in the full FASTA def…
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Here is a long list to be copied into the Resources section:
# Resources
## Infrastructures
COVID-19 HPC Consortium
https://www.xsede.org/covid19-hpc-consortium
The consortium encompasses compu…
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Using a .paf file generated with the latest minimap2 version by:
minimap2 -x ava-ont ../reads.fq ../reads.fq > hcov_only_ava.paf
and trying to use miniasm on that:
miniasm -f ../reads.fq hcov_onl…
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As reported by an anonymous user in #hashcat. I can reproduce this using v3.30-7-g8879039.
Steps to recreate (ref: https://pastebin.com/xFJJfJtJ):
$ cat > test_hashes.1500
hcOv/GzXPYtBQ
hcK0.h…