ATLAS / POST-QC DATASET
Atlas / Post-QC Dataset Statistics System › sys06
Validated descriptive statistics for cells already present in this atlas release; this is not a report of pre-filtering QC decisions.
๐ analysis_results_v2/SP239_sys/sys06/releases/r20260808-v4/modules/stats
Scope: post_qc_descriptive / Source: validated immutable release
Limitations: Per-cell raw-count QC metrics were not exported in the v3 source release. / Statistics describe the selected post-QC cell universe; no pre/post filtering comparison is inferred.
๐ Overview
๐ QC Metrics
๐บ๏ธ UMAP
๐งฉ Composition
๐งฌ Markers
๐ Gene Stats
๐ Data 2
📋
Atlas / Post-QC OverviewDescriptive statistics for retained atlas cells; filtering metrics may be unavailable
🔬
Total Cells
82,309
Cells represented in this release
🧬
Total Genes
15,892
Genes represented in the source matrix
🔷
Cell Types
18
Annotated cell-type groups
🫀
Tissues
2
Annotated tissue groups
📦
Samples
N/A
Not exported by the post-QC descriptive statistics pipeline.
📊
Clusters
N/A
Not exported by the post-QC descriptive statistics pipeline.
📊
Median Genes/Cell
N/A
Not exported by the post-QC descriptive statistics pipeline.
📈
Median Counts/Cell
N/A
Not exported by the post-QC descriptive statistics pipeline.
⚡
Mito %
N/A
Not exported by the post-QC descriptive statistics pipeline.
🧪
Ribo %
N/A
Not exported by the post-QC descriptive statistics pipeline.
✅
Cells Passing
N/A
Validated Raw Count Thresholds Not Available.
🚫
Cells Filtered
N/A
Validated Raw Count Thresholds Not Available.
✅
Pass Rate
N/A
Validated Raw Count Thresholds Not Available.
QC filtering metrics: N/A
Validated Raw Count Thresholds Not Available. This release describes cells after upstream QC; it does not reconstruct filtering thresholds or removed-cell counts.
๐ท Cell Type / Cluster Breakdown
| Name | Cells | % | Med Genes | Med Counts | Med Mito% |
|---|---|---|---|---|---|
| Macrophages | 999 | 1.2137190343705% | — | — | — |
| T cells | 121 | 0.147007010169% | — | — | — |
| Epididymal epithelial cells | 20,713 | 25.164927286202% | — | — | — |
| Leydig cells | 8,595 | 10.442357457872% | — | — | — |
| Basal cells | 1,939 | 2.355756964609% | — | — | — |
| Ciliated cells | 1,630 | 1.9803423683923% | — | — | — |
| Efferent ductule epithelial cells | 224 | 0.2721452089079% | — | — | — |
| Mesothelial cells | 92 | 0.11177392508717% | — | — | — |
| Sertoli cells | 9,719 | 11.807943238285% | — | — | — |
| Fibroblasts | 3,096 | 3.761435565977% | — | — | — |
| Peritubular myoid cells | 1,022 | 1.2416625156423% | — | — | — |
| Adipocytes | 31 | 0.037662953018503% | — | — | — |
| Smooth muscle cells | 703 | 0.85409857974219% | — | — | — |
| Spermatids | 13,701 | 16.64581030021% | — | — | — |
| Spermatogonia | 9,925 | 12.058219635763% | — | — | — |
| Spermatocytes | 6,777 | 8.2336075034322% | — | — | — |
| Spermatozoa | 2,523 | 3.0652784021188% | — | — | — |
| Endothelial cells | 499 | 0.60625205020107% | — | — | — |
18 groups
๐
QC MetricsInteractive boxplots and scatter plots
๐ Distribution Summary
| Metric | Min | Q1 | Median | Mean | Q3 | Max | Std |
|---|
๐ป Genes/Cell BOXPLOT
๐ป Counts/Cell BOXPLOT
๐ป Mito % BOXPLOT
๐ป Ribo % BOXPLOT
๐ฌ Genes vs Counts SCATTER
๐บ๏ธ
UMAP EmbeddingInteractive 2D projection colored by cell type / cluster
๐บ๏ธ UMAP by Group INTERACTIVE
๐งฉ
Cell CompositionCell type proportions overall and per sample
๐ฅง Overall PIE
๐ Per-sample STACKED BAR
๐งฌ
Marker GenesTop markers per cluster and expression heatmap
๐ฅ Expression Heatmap Z-SCORE
๐
Gene StatisticsTop expressed genes and detection rates
Limited gene-statistics scope: mapped longevity genes only
Descriptive source-X expression summaries for mapped longevity genes only; this is not a whole-transcriptome top-gene analysis. Rankings and percentages on this tab are restricted to the mapped longevity panel and must not be interpreted as genome-wide top-expression results.
๐ Top Expressed BAR
๐
Data FilesDownload QC data tables
๐ Available Files
| File | Description | Action |
|---|---|---|
| composition.csv | Composition | ๐ฅ Download |
| gene_stats.csv | Gene Stats | ๐ฅ Download |
๐ Preview: composition.csv
๐ฅ Full CSV| grouping | group | count | pct | category | color |
|---|---|---|---|---|---|
| celltype | Epididymal epithelial cells | 20713 | 25.1649 | Epithelial cells | #9370DB |
| celltype | Spermatids | 13701 | 16.6458 | Germ cells | #8D6E63 |
| celltype | Spermatogonia | 9925 | 12.0582 | Germ cells | #FFFF00 |
| celltype | Sertoli cells | 9719 | 11.8079 | Stromal cells | #8FBC8F |
| celltype | Leydig cells | 8595 | 10.4424 | Epithelial cells | #5F9EA0 |
| celltype | Spermatocytes | 6777 | 8.2336 | Germ cells | #FFD700 |
| celltype | Fibroblasts | 3096 | 3.7614 | Stromal cells | #008000 |
| celltype | Spermatozoa | 2523 | 3.0653 | Germ cells | #D4E157 |
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