A) I love the workflow set up - it's a pity we can't copy and save ready made work flows within the same project to alter slightly and rerun.
B) The cohort browser is vvv useful, but it is very tedious filtering the same ICD10 codes across different diagnoses/instances - it would be great if once one set of ICD10 codes are identified, if they could be copied and pasted into e.g. a different instance of the record or filter etc.
For both - are there ways around this / am I missing something / can you change?
A) Each workflow has its dxworkflow.json. The file dxworkflow.json is a DNAnexus workflow metadata file. If it is detected in the directory provided to dx build, the dx-toolkit will attempt to build a workflow in the platform according to the workflow specification in the JSON file. You should be able to get your already existing workflow, alter it slightly, build and rerun.
B) Sounds to me like a great Cohort Browser feature request for DNAnexus Product Team. Please forward it to ukbiobank-support@dnanexus.com and provide more screenshots.
As a workaround for various advanced experiments in Cohort Browser, I prefer using JupyterLab and accessing data programatically. I typically build my analyses on the following notebook:
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....and if we could copy the ICD10 codes + titles so we don't need to type them into a document....
A) Each workflow has its dxworkflow.json. The file dxworkflow.json is a DNAnexus workflow metadata file. If it is detected in the directory provided to dx build, the dx-toolkit will attempt to build a workflow in the platform according to the workflow specification in the JSON file. You should be able to get your already existing workflow, alter it slightly, build and rerun.
https://documentation.dnanexus.com/developer/workflows/workflow-build-process#dxworkflow.json-workflow-metadata
Also review the following two pages (Building and Getting a Workflow):
https://documentation.dnanexus.com/developer/workflows/workflow-build-process#building-a-workflow
https://documentation.dnanexus.com/developer/workflows/workflow-build-process#getting-a-workflow
especially, I would consider adding --keep-open option that will keep the workflow open allowing you to edit the workflow from the DNAnexus UI
B) Sounds to me like a great Cohort Browser feature request for DNAnexus Product Team. Please forward it to ukbiobank-support@dnanexus.com and provide more screenshots.
As a workaround for various advanced experiments in Cohort Browser, I prefer using JupyterLab and accessing data programatically. I typically build my analyses on the following notebook:
https://github.com/dnanexus/OpenBio/blob/master/UKB_notebooks/ukb-rap-pheno-basic.ipynb
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