Skip to content
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.

Sign up for GitHub

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

Jump to bottom

Create a summary report #728

Open
dialvarezs opened this issue Dec 10, 2024 · 1 comment
Open

Create a summary report #728

dialvarezs opened this issue Dec 10, 2024 · 1 comment
Labels
enhancement New feature or request

Comments

@dialvarezs
Copy link
Contributor

Description of feature

Follow-up to #725.

It might be helpful to generate a proper summary report using Quarto/Rmd as a more accessible way to explore the results of mag. The report could be similar to the one implemented in ampliseq (Example: https://nf-core-awsmegatests.s3-eu-west-1.amazonaws.com/ampliseq/results-8f139cecd95a23920617f2c2b154733494ed4562/summary_report/summary_report.html)

This report could include:

  • Pre-processing statistics
  • Graphical assembly statistics
  • Binner comparisons:
    • Number of bins at different quality thresholds
    • Scatter plots of completeness/contamination, colored by binner
    • Taxonomy by binner
  • GTDB/CAT taxonomy overview for bins:
    • Sankey plots?
  • K-mer plots, similar to those in this article
@dialvarezs dialvarezs added the enhancement New feature or request label Dec 10, 2024
@jfy133
Copy link
Member

jfy133 commented Dec 10, 2024

Suggestions from @prototaxites

Sign up for free to join this conversation on GitHub. Already have an account? Sign in to comment
Assignees
No one assigned
Labels
enhancement New feature or request
Projects
None yet
Milestone
No milestone
Development

No branches or pull requests
2 participants
@dialvarezs @jfy133