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Missing an "a" #829

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Dec 6, 2024
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Missing an "a" #829

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update text
sjspielman Dec 6, 2024
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Update 02-dataset_integration.Rmd
sjspielman Dec 6, 2024
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4 changes: 2 additions & 2 deletions scRNA-seq-advanced/02-dataset_integration.Rmd
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Expand Up @@ -739,8 +739,8 @@ Like `fastMNN`, `harmony` performs integration on a merged PCA matrix.
However, unlike `fastMNN`, `harmony` does not "back-calculate" corrected expression from the corrected PCA matrix and it only returns the corrected PCA matrix itself.
For input, `harmony` needs a couple pieces of information:

- First, `harmony` takes batch-weighted PCA matrix directly to perform integration.
Since we already calculated a batch-weighted PCA matrix (our `merged_PCA` reduced dimension), we'll provide this information directly.
- First, `harmony` takes a batch-weighted PCA matrix to perform integration.
We already calculated a batch-weighted PCA matrix (our `merged_PCA` reduced dimension), we'll provide this variable.
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- Second, we need to tell `harmony` about the covariates to use - `sample` and `patient`.
To do this, we provide two arguments:
- `meta_data`, a data frame that contains covariates across samples.
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