Testis 1 Individual Clustering

UNDER CONSTRUCTION

Testis 1 Individual Clustering

Normalize Data

sobj <- FindVariableFeatures(
    sobj,
    selection.method = "vst",
    nfeatures = 2000,
    verbose = FALSE
)

top20 <- head(VariableFeatures(sobj), 20)

Scale Data

all_genes <- rownames(sobj)

sobj <- ScaleData(
    sobj,
    features = all_genes,
    vars.to.regress = "nCount_RNA",
    verbose = FALSE
)

Dimensionality Reduction

Dimensional Gene Loadings

Top Genes Heatmap

JackStraw

Elbow Plot

Dimension Selection

Clustering

ResolutionNum of Clusters
0.410
0.510
0.611
0.712
0.813
0.914
114
1.116
1.216

Look at marker genes

Spermatogonia

Spermatocytes

CySC

TE

PC

hub

Cluster Markers

clusterNum Biomarkers per Cluster
0130
1617
2263
32,043
4495
5143
6455
71,175
81,266
99
101,029
111,031
12633