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Genomics
Lineages,assigned offline
Pango lineage assignment over consensus genomes.The lineage data is in the image, so nothing is fetched.
Pangolin 4.3.14 cores · 8 GBRuns as a job
hub://pangolin
$ dxflow workflow create --identity pangolin hub://pangolin
$ dxflow workflow start pangolin --override env.job.INPUT=/data/input/genomes.fasta
01Pick a machinecores, memory and a rate per hour
02Create the workflowpulled from the hub, once
03Run it, then stopstopped when the work is done
The application
A FASTA in,a report out
One row per sequence, with the lineage, the conflict and the QC.
Consensus genomes
One FASTA of near-complete SARS-CoV-2 genomes is what it expects.
One CSV back
lineage_report.csv, a row per sequence, and the versions it used.
Nothing to download
The pdata is baked in, so assignment runs with no network at all.
The job
It runs,and then it stops
A job, not a session — it ends when the report is written.
inputInputyour genomes, read-only
outputOutputthe lineage report
Point INPUT at itThe default is /data/input/sequences.fasta — override it.
Watch it from the CLIdxflow workflow logs follows the run, and list shows the state.
Run Pangolin on your own machinePick a machine that meets it, and it opens about a minute after you ask.