new module: gprofiler/convert

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Is there an open PR for this?

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Further Information

Hi everyone,

We could really use a module for converting gene/protein IDs between different ID spaces in our pipeline, diseasemodulediscovery. I could also imagine this being generally useful for other pipelines as well :)

There is already a module available for overrepresentation analysis using gprofiler/gost, which we are already using in our pipeline. G:Profiler also provides ID mapping functionality via gprofiler/convert, based on the Ensembl database. I think it would be great to have this available as a module too, taking a list of IDs as input and producing a mapping table as output.

We would also be happy to work on the module ourselves.

One potential concern is that the module would query a dynamic online database, and I do not think there is currently a way to pin a specific database version. As a result, two runs with identical inputs at different time points might not always return exactly the same results. I am not sure whether this would be considered an issue, or whether similar limitations already apply to some existing modules.

Are you going to work on this?

• If I'm planning to work on this module, I added myself to the Assignees to facilitate tracking who is working on the module

Software requirements (conda)

---
# yaml-language-server: $schema=https://raw.githubusercontent.com/nf-core/modules/master/modules/environment-schema.json
channels:
  - conda-forge
  - bioconda
dependencies:
  - conda-forge::r-ggplot2=3.4.3
  - conda-forge::r-gprofiler2=0.2.2