Docs: from hackathon version to publication ready - Githubissues

iRNA-COSI / APAeval

Community effort to evaluate computational methods for the detection and quantification of poly(A) sites and estimating their differential usage across RNA-seq samples

MIT License

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Docs: from hackathon version to publication ready #464

Closed ninsch3000 closed 1 year ago

ninsch3000 commented 1 year ago

[x] Fixes #257
[ ] Fixes #313 partially
[x] Fixes #377
[x] Fixes #224
[x] Fixes #183
[x] clean up
[x] add instructions for running tools on own data
[x] add instructions for benchmarking new tool
[x] add instructions for extending APAeval
renamed execution workflows to method workflows
renamed summary workflows to benchmarking workflows
deleted pilot
added overview of current APAeval samples(=challenges)
link to absQuant workflow as template for benchmarking workflows
lots of smaller stuff

Checklist

[ ] I have performed a self-review of my own code
[ ] I have commented my code, particularly in hard-to-understand areas
[x] I have updated corresponding READMEs (if applicable)
[ ] My code follows the templates/style guidelines of the repository
[ ] In- and output formats comply with APAeval specifications
[ ] No parameters or file names are hardcoded
[x] Results, logs or other output is not commited to the repository
[ ] I have tested my code

ninsch3000 commented 1 year ago

Thanks a lot @dominikburri and @SamBryce-Smith for all the good suggestions!