sanger-tol/sequencecomposition

Genome mappability

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#30 opened on May 2, 2022

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 (4 comments) (0 reactions) (0 assignees)Nextflow (3 forks)auto 404
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Description

Description of feature

It is equal to percentage of reads mapped to the genome. Possible software: WGSIM

Contributor guide

Research direction
Start by exploring the repository structure and existing Nextflow modules to understand how statistics are currently computed and reported. Identify the main workflow file and how processes are defined. Then investigate how to add a new process for mappability. Consider using WGSIM to simulate reads from the genome, align them back to the genome, and compute the percentage of mapped reads. Check the project's container configuration (e.g., Docker or Conda) to see how external tools are integrated.
Tech stack
None
Domain
data
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.
Clear
Prerequisites
GitNextflow
Newbie friendlinessA 1-100 score estimating how approachable this issue is for first-time contributors.
55