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Czarnewski
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adds link to scater spatial
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exercises.md

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@@ -30,7 +30,7 @@ During this workshop, you will use conda environments to run the exercises. This
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| <img border="0" src="https://cdn0.iconfinder.com/data/icons/network-analysis-7/64/cluster-positive-negative-group-collection-512.png" width="30" height="30"> Clustering | [Seurat_clust](labs/compiled/seurat/seurat_04_clustering.html) ([.Rmd](https://raw.githubusercontent.com/NBISweden/workshop-scRNAseq/master/labs/compiled/seurat/seurat_04_clustering.Rmd)) | [Scater_clust](labs/compiled/scater/scater_04_clustering.html) ([.Rmd](https://raw.githubusercontent.com/NBISweden/workshop-scRNAseq/master/labs/compiled/scater/scater_04_clustering.Rmd)) | [Scanpy_clust](labs/compiled/scanpy/scanpy_04_clustering.html) ([.ipynb](https://raw.githubusercontent.com/NBISweden/workshop-scRNAseq/master/labs/compiled/scanpy/scanpy_04_clustering.ipynb)) |
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| <img border="0" src="https://static.thenounproject.com/png/1517975-200.png" width="30" height="30"> Differential expression | [Seurat_dge](labs/compiled/seurat/seurat_05_dge.html) ([.Rmd](https://raw.githubusercontent.com/NBISweden/workshop-scRNAseq/master/labs/compiled/seurat/seurat_05_dge.Rmd)) | [Scater_dge](labs/compiled/scater/scater_05_dge.html) ([.Rmd](https://raw.githubusercontent.com/NBISweden/workshop-scRNAseq/master/labs/compiled/scater/scater_05_dge.Rmd)) | [Scanpy_dge](labs/compiled/scanpy/scanpy_05_dge.html) ([.ipynb](https://raw.githubusercontent.com/NBISweden/workshop-scRNAseq/master/labs/compiled/scanpy/scanpy_05_dge.ipynb)) |
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| <img border="0" src="files/icon_celltype.png" width="30" height="30"> Celltype prediction | [Seurat_ct](labs/compiled/seurat/seurat_06_celltype.html) ([.Rmd](https://raw.githubusercontent.com/NBISweden/workshop-scRNAseq/master/labs/compiled/seurat/seurat_06_celltype.Rmd)) | [Scater_ct](labs/compiled/scater/scater_06_celltype.html) ([.Rmd](https://raw.githubusercontent.com/NBISweden/workshop-scRNAseq/master/labs/compiled/scater/scater_06_celltype.Rmd)) | [Scanpy_ct](labs/compiled/scanpy/scanpy_06_celltype.html) ([.ipynb](https://raw.githubusercontent.com/NBISweden/workshop-scRNAseq/master/labs/compiled/scanpy/scanpy_06_celltype.ipynb)) |
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| <img border="0" src="files/ST_icon.png" width="30" height="30"> Spatial transcriptomics | [Seurat_ST](labs/compiled/seurat/seurat_07_spatial.html) ([.Rmd](https://raw.githubusercontent.com/NBISweden/workshop-scRNAseq/master/labs/compiled/seurat/seurat_07_spatial.Rmd)) | [Scater_ct](labs/compiled/scater/scater_07_spatial.html) ([.Rmd](https://raw.githubusercontent.com/NBISweden/workshop-scRNAseq/master/labs/compiled/scater/scater_07_spatial.Rmd)) | [Scanpy_ST](labs/compiled/scanpy/scanpy_07_spatial.html) ([.ipynb](https://raw.githubusercontent.com/NBISweden/workshop-scRNAseq/master/labs/compiled/scanpy/scanpy_07_spatail.ipynb)) |
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| <img border="0" src="files/ST_icon.png" width="30" height="30"> Spatial transcriptomics | [Seurat_ST](labs/compiled/seurat/seurat_07_spatial.html) ([.Rmd](https://raw.githubusercontent.com/NBISweden/workshop-scRNAseq/master/labs/compiled/seurat/seurat_07_spatial.Rmd)) | [Scater_ST](labs/compiled/scater/scater_07_spatial.html) ([.Rmd](https://raw.githubusercontent.com/NBISweden/workshop-scRNAseq/master/labs/compiled/scater/scater_07_spatial.Rmd)) | [Scanpy_ST](labs/compiled/scanpy/scanpy_07_spatial.html) ([.ipynb](https://raw.githubusercontent.com/NBISweden/workshop-scRNAseq/master/labs/compiled/scanpy/scanpy_07_spatail.ipynb)) |
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| <img border="0" src="https://cdn2.vectorstock.com/i/1000x1000/49/51/route-location-icon-vector-16394951.jpg" width="30" height="30"> Trajectory inference | [Slingshot_ti](labs/compiled/slingshot/slingshot.html) ([.Rmd](https://raw.githubusercontent.com/NBISweden/workshop-scRNAseq/master/labs/compiled/slingshot/slingshot.Rmd)) | [Slingshot_ti](labs/compiled/slingshot/slingshot.html) | [PAGA_ti](https://scanpy-tutorials.readthedocs.io/en/latest/paga-paul15.html) |
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