New issue

Have a question about this project? Sign up for a free GitHub account to open an issue and contact its maintainers and the community.

By clicking “Sign up for GitHub”, you agree to our terms of service and privacy statement. We’ll occasionally send you account related emails.

Already on GitHub? Sign in to your account

Use Case: Link Papers to Script and Model Runs #1

Open
rayi113 opened this Issue Jan 16, 2015 · 2 comments

Comments

Projects
None yet
3 participants
@rayi113

rayi113 commented Jan 16, 2015

Use Case: Link Papers to Script Runs and scripts

Goal and Summary

A scientist can provide citation links to scholarly papers that were derived from particular executions of a script or model. These links can take the form of links to published identifiers for the execution trace, or from the trace to the paper via e.g., a DOI. As a scientist using e.g., R or Matlab, The goal is to link a paper to a given script run to document the exact process used to derive published data, figures, or tables. In R or Matlab, after executing a script and recording provenance information about the run, a researcher can later update the execution's provenance information by providing a link to a permanent identifier (such as a DOI) of a published document. Other researchers can discover the papers from links of the script executions.

Why is it important and to whom?

  • It is critical to computational reproducibility
  • It improves discovery via finding all papers related to particular analyses

Why hasn’t it been solved yet?

  • Repositories for execution traces are rare, and those that exist are not well established
  • Tools for generating execution traces are not widely adopted
  • Standards for representing traces have been in flux (e.g., OPM, PROV, etc)

Actionable Outcomes

Additional Information and Links

@alesarrett

This comment has been minimized.

alesarrett commented Jan 26, 2015

Could the "Code as a research object" project (https://github.com/mozillascience/code-research-object) from Mozillascience be a useful tool?

@mbjones

This comment has been minimized.

mbjones commented Jan 26, 2015

@alesarrett Yes, absolutely. See the work we've already done as part of that project in my codemeta repository, which has crosswalks among existing software metadata efforts and a proposed JSON-LD context for software metadata. We also have a working PROV extension in DataONE. For an example of the kind of provenance tracing I think needs to be widespread, see the Ma et al. paper titled Capturing provenance of global change information, doi:10.1038/nclimate2141.

Sign up for free to join this conversation on GitHub. Already have an account? Sign in to comment