Git Product home page Git Product logo

Comments (2)

stemangiola avatar stemangiola commented on June 26, 2024

My understanding is that minimal effect = 0.2 by default. In general, a celltype whose CI is far away from 0 is considered as significant. That means, if a cell type has c_effect < 0, it will be signficant (c_FDR<0.05) if its c_upper < -0.2 ; if a cell type has c_effect > 0, it will be signficant (c_FDR<0.05) if its c_lower > 0.2.

Although this is roughly what happens intuitively, is not 1 to 1 link.

  • probability: The probability of an effect occurring is calculated as the quantile of the posterior distribution that is left or right (exclusively) of the minimal effect threshold (e.g 0.2). Here, if the CI is outside the threshold range, it is significant.
  • false-discovery rate: as explained in the paper, it is the cumulative mean of the probabilities (so FDR always < than the probability for each single cell type). So, the CI and FDR do not match perfectly. FDR is a cumulative statistic, and it is not about a single cell type.

Let me know if that was clear; with your help, we could add an explanation in the README to help users understand.

from sccomp.

stemangiola avatar stemangiola commented on June 26, 2024

closing for inactivity, feel free to reopen it.

from sccomp.

Related Issues (20)

Recommend Projects

  • React photo React

    A declarative, efficient, and flexible JavaScript library for building user interfaces.

  • Vue.js photo Vue.js

    🖖 Vue.js is a progressive, incrementally-adoptable JavaScript framework for building UI on the web.

  • Typescript photo Typescript

    TypeScript is a superset of JavaScript that compiles to clean JavaScript output.

  • TensorFlow photo TensorFlow

    An Open Source Machine Learning Framework for Everyone

  • Django photo Django

    The Web framework for perfectionists with deadlines.

  • D3 photo D3

    Bring data to life with SVG, Canvas and HTML. 📊📈🎉

Recommend Topics

  • javascript

    JavaScript (JS) is a lightweight interpreted programming language with first-class functions.

  • web

    Some thing interesting about web. New door for the world.

  • server

    A server is a program made to process requests and deliver data to clients.

  • Machine learning

    Machine learning is a way of modeling and interpreting data that allows a piece of software to respond intelligently.

  • Game

    Some thing interesting about game, make everyone happy.

Recommend Org

  • Facebook photo Facebook

    We are working to build community through open source technology. NB: members must have two-factor auth.

  • Microsoft photo Microsoft

    Open source projects and samples from Microsoft.

  • Google photo Google

    Google ❤️ Open Source for everyone.

  • D3 photo D3

    Data-Driven Documents codes.