biocore/q2-qemistree

prune hierarchy based on feature abundance and/or prevalence

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#95 opened on Jan 20, 2020

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enhancementhelp wanted

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Description

prune-hierarchy could take sample metadata and feature data as inputs and prune trees based on the prevalence of features in the various categories of a metadata column. Alternatively, pruning could be done independent of sample metadata based on the top x% most abundant features across the dataset.

Contributor guide

Research direction
Investigate the existing tree structure and implement a function to prune nodes based on feature abundance or sample metadata group prevalence. Use the provided QIIME 2 plugin framework to integrate the new method.
Tech stack
python
Domain
data
Issue type
Feature
DifficultyEstimated implementation difficulty for a new contributor, from 1 for very small changes to 5 for expert-level work.
2
Estimated timeA rough time range for an experienced contributor to investigate, implement, test, and prepare a pull request.
Half day
Activity statusHow available the issue appears right now: fresh, active, stale, blocked, or waiting on maintainer input.
Fresh
ClarityHow clearly the issue explains the expected change, acceptance criteria, and next step.
Clear
Prerequisites
Python
Newbie friendlinessA 1-100 score estimating how approachable this issue is for first-time contributors.
70