bigbio / bigbio/proteomics-sample-metadata

Suggestions to SDRF v1.1.0

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#774 3 comments 0 reactions 0 assignees View on GitHub
enhancement
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HTML
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Forks
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Description

I really like the addition of subdomain-specific templates! Feedback on what I think would be still great to have in SDRF 1.1.0:

* Allow multiple —templates separated by , e.g. immunopeptidomics,dda-ms-proteomics to validate against
* Add functionality that generates an header-only tsv file based on the `--template` flag that the user can fill
* Data-dependent acquisition (DDA) Template addition request (optional columns):
* comment[precursor mass tolerance]
* comment[fragment mass tolerance]
* comment[digest mass range]
* comment[prec charge]

@ypriverol @timosachsenberg

Contributor guide

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Research direction

Start by tracing the existing --template entry point and template validation flow. Determine how multiple templates, header-only TSV generation, and the requested optional DDA columns fit the current SDRF templates; done means each requested behavior is supported and covered by the project's existing checks.

Written by the indexing model from the issue text.

Assessment

Domain
cli, data
Issue type
Feature
Difficulty
4/5
Estimated time
3-5 days
Activity status
Stale
Clarity
Mostly clear
Newbie friendliness
35/100

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