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# 5.3.5 seurat 的几种findmaker比较

> from : <https://www.biostars.org/p/409790/>

* **FindMarkers** will find markers between two different identity groups - you have to specify both identity groups. This is useful for comparing the differences between two specific groups.<br>
* **FindAllMarkers** will find markers differentially expressed in each identity group by comparing it to all of the others - you don't have to manually define anything. Note that markers may bleed over between closely-related groups - they are not forced to be specific to **only** one group. This is what most people use (and likely what you want).<br>
* **FindConservedMarkers** will find markers that are conserved between two groups - this can be useful if you want to find markers that are conserved between a treated and untreated condition for **a specific cell type or group of cells**. It means they are differentially expressed compared to other groups, but have similar expression between the two groups you're actually comparing.<br>

### 另外findmarker也可以按照metadata的某一列进行寻找：

> 来自：<https://github.com/satijalab/seurat/issues/252>

```
Idents(object = sce) <- sce@meta.data$'celltype'
# 然后再往下走find流程
sce.markers <- FindAllMarkers(object = sce, only.pos = TRUE, min.pct = 0.25, thresh.use = 0.25)
```