sanger-tol/sequencecomposition

LTR retrotransposons from `LTRharvest`

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#18 opened on Jun 2, 2024

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good first issuehelp wanted

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Description

Copy the functionality from the GDA pipeline.

Contributor guide

Research direction
Explore the GDA pipeline (https://github.com/sanger tol/gda) to locate the code that handles LTR retrotransposons, particularly any modules or processes using LTRharvest. Understand how the GDA pipeline integrates this functionality and what inputs/outputs it expects. Then compare it with the structure of sequencecomposition to determine where and how to add similar functionality, following the existing Nextflow module and workflow patterns.
Tech stack
groovy
Domain
bioinformatics
Issue type
Feature
DifficultyEstimated implementation difficulty for a new contributor, from 1 for very small changes to 5 for expert-level work.
3
Estimated timeA rough time range for an experienced contributor to investigate, implement, test, and prepare a pull request.
1-2 days
Activity statusHow available the issue appears right now: fresh, active, stale, blocked, or waiting on maintainer input.
Active
ClarityHow clearly the issue explains the expected change, acceptance criteria, and next step.
Needs investigation
Prerequisites
GitNextflow
Newbie friendlinessA 1-100 score estimating how approachable this issue is for first-time contributors.
50