diff --git a/README.md b/README.md index 197d8d1..cc1c100 100644 --- a/README.md +++ b/README.md @@ -10,7 +10,7 @@ seurat_v2.R - initialize seurat object from 10X Genomics cellranger outputs. Inc clustering_markers_v2.R - clustering and tSNE visualization for v2 datasets.

seurat_object_analysis_v1_and_v2.R - downstream analysis and plotting functions for seurat object created by seurat_v1.R or seurat_v2.R.

merge_clusters.R - merge clusters that do not meet gene threshold. Used for both v1 and v2 datasets.

-prepare_for_monocle_v1.R - subcluster cells of interest and perform linear regression, but not scaling in order to input normalized, regressed values into monocle with monocle_seurat_input_v1.R +prepare_for_monocle_v1.R - subcluster cells of interest and perform linear regression, but not scaling in order to input normalized, regressed values into monocle with monocle_seurat_input_v1.R

monocle_seurat_input_v1.R - monocle script using seurat batch corrected values as input for v1 merged timecourse datasets.

monocle_lineage_trace.R - monocle script using nUMI as input for v2 lineage traced dataset.

monocle_object_analysis.R - downstream analysis for monocle object - BEAM and plotting.