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Fix a few typos in the heatmap notebook #790

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Aug 7, 2024
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Fix a few typos in the heatmap notebook #790

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696f2e3
Merge remote-tracking branch 'origin/master' into jaclyn-taroni/778-r…
jaclyn-taroni Aug 7, 2024
d0fb884
Fix typos in heatmap notebook
jaclyn-taroni Aug 7, 2024
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6 changes: 3 additions & 3 deletions RNA-seq/06-openpbta_heatmap.Rmd
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Expand Up @@ -20,7 +20,7 @@ This notebook will demonstrate how to:
---

In this notebook, we cluster RNA-seq data from the Open Pediatric Brain Tumor Atlas (OpenPBTA) project and create a heatmap.
OpenPBTA is a collaborative project organized by the CCDL and the Center for Data-Driven Discovery in Biomedicine (D3b) at the Children's Hospital of Philadelphia conducted openly on GitHub.
OpenPBTA is a collaborative project organized by the Data Lab and the Center for Data-Driven Discovery in Biomedicine (D3b) at the Children's Hospital of Philadelphia conducted openly on GitHub.

You can read more about the project [here](https://github.com/alexslemonade/openpbta-analysis/#openpbta-analysis).

Expand Down Expand Up @@ -66,7 +66,7 @@ fs::dir_create(plots_dir)
histologies_file <- file.path(data_dir, "pbta-histologies-subset.tsv")

# The RNA-seq counts table
rnaseq_file = file.path(data_dir, "pbta-rsem-expected_count-subset.rds")
rnaseq_file <- file.path(data_dir, "pbta-rsem-expected_count-subset.rds")
```

#### Output files
Expand Down Expand Up @@ -311,7 +311,7 @@ Heatmap(zscores_mat,
name = "z-score")
```

`ComplexHeatmap` gives a few warning here, but nothing to be concerned about.
`ComplexHeatmap` gives a few warnings here, but nothing to be concerned about.
One is complaining that the color scale may be truncated relative to our data.
The other warns that our very large heatmap itself is being drawn at a lower resolution to speed things up.

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