AlexsLemonade / AlexsLemonade/OpenScPCA-analysis

Run inferCNV on neuroblastoma samples

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analysis
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HTML
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16
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24
Avg merge
3d 5h
Merged PRs (30d)
4

Description

### If you are filing this issue based on a specific GitHub Discussion, please link to the relevant Discussion.

Part of #1143

### Describe the goals of the changes to the analysis module.

This issue tracks getting our first set of `inferCNV` results on NB samples from `SCPCP000004`. To do this, we'll need to add a step in the `SCPCP000004`-specific workflow script to run inferCNV across samples.

### What will your pull request contain?

The PR will have updates to the project-specific workflow script to run `inferCNV` over the relevant samples & conditions

### Will you require additional software beyond what is already in the analysis module?

No

### Will you require different computational resources beyond what the analysis module already uses?

No

### If known, when do you expect to file the pull request?

Next sprint

Contributor guide

Open the contributing guide

Research direction

Start by locating the SCPCP000004-specific workflow script and read how samples and conditions are currently processed. Add the inferCNV analysis step for the relevant NB samples, then verify that the workflow produces the first inferCNV results without requiring additional software or computational resources.

Written by the indexing model from the issue text.

Assessment

Domain
bioinformatics
Issue type
Feature
Difficulty
3/5
Estimated time
1-2 days
Activity status
Stale
Clarity
Mostly clear
Newbie friendliness
35/100

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