omics4plant

WORKFLOW

flowchart TB
1[Remove ambient] --- 1.1[Dataget-SoupX] 
1 ==> 2[Remove doublet and Merge] --- 2.1[Dataget-scrublet] 
2 --- 2.2[Dataget-scDblfinder]
2 ==> 3[scAnno]
3 --- |Marker| 3.1[scAnno-sctype] --- 3.1.1[Enrich] --- 3.1.2[AddModuleScore]
3 --- |Reference| 3.2[scAnno-singler]
3 --- 3.3[scAnno-?]
3 ==> 4[MetaNeighbor]
4 ==> 5[Integration]
5 ==> 6[DEA]
5 ==> 7[Trajectory]
5 ==> 8[GRN]

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ydFormat

rds与h5ad文件的转换

Dataget :arrow_up:

Cluster :arrow_up:

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MetaNeighbor :arrow_up:

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Annotation (optional)

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Enrich (optional)

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Integration

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DEA :arrow_down:

GRN :arrow_down:

CEA :arrow_down:

Trajectory :arrow_down: