---
id: "claim:voyager-exploratory-single-cell-genomics-data-analysis-with-geospatial-statisti-69c00e33c5:920bda20b10a16255baa"
kind: "claim"
title: "However, the PCA results remain somewhat different even when using the same set of highly variable genes because of a hi"
description: "However, the PCA results remain somewhat different even when using the same set of highly variable genes because of a hidden default in Seurat that clips scaled data to 10, while scanpy by default does not clip the scaled data (Supplementary Figure 7)."
url: "https://sina.bio/claim/however-the-pca-results-remain-somewhat-different-even-when-using-the-s-87f7b235"
---

# However, the PCA results remain somewhat different even when using the same set of highly variable genes because of a hi

However, the PCA results remain somewhat different even when using the same set of highly variable genes because of a hidden default in Seurat that clips scaled data to 10, while scanpy by default does not clip the scaled data (Supplementary Figure 7).

## Content

However, the PCA results remain somewhat different even when using the same set of highly variable genes because of a hidden default in Seurat that clips scaled data to 10, while scanpy by default does not clip the scaled data (Supplementary Figure 7).

## Metadata

```json
{
  "claim_position": 168,
  "source_publication_id": "version:voyager-exploratory-single-cell-genomics-data-analysis-with-geospatial-statistics--2023-07-22-biorxiv",
  "source_work_id": "work:voyager-exploratory-single-cell-genomics-data-analysis-with-geospatial-statistics"
}
```

## Connections (1)

### Voyager: exploratory single-cell genomics data analysis with geospatial statistics

- ID: `version:voyager-exploratory-single-cell-genomics-data-analysis-with-geospatial-statistics--2023-07-22-biorxiv`
- Kind: `publication`
- Direction: `incoming`
- URL: <https://sina.bio/publication/voyager-exploratory-single-cell-genomics-data-analysis-with-geospatial-7b90c7a5>

This publication contains this grounded claim.

> However, the PCA results remain somewhat different even when using the same set of highly variable genes because of a hidden default in Seurat that clips scaled data to 10, while scanpy by default does not clip the scaled data (Supplementary

Source: 2023-07-22-biorxiv.pdf — <https://sina.bio/source/2023-07-22-biorxiv-pdf>

> Figure 7).

Source: 2023-07-22-biorxiv.pdf — <https://sina.bio/source/2023-07-22-biorxiv-pdf>