ATLAS / POST-QC DATASET
Atlas / Post-QC Dataset Statistics Tissue › sys01tis19
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/SP020_tis/sys01tis19/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
18,563
Cells represented in this release
🧬
Total Genes
17,305
Genes represented in the source matrix
🔷
Cell Types
16
Annotated cell-type groups
🫀
Tissues
1
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% |
|---|---|---|---|---|---|
| Rod cells | 6,249 | 33.663739697247% | — | — | — |
| Amacrine cells | 3,061 | 16.489791520767% | — | — | — |
| Bipolar cells | 2,666 | 14.361902709691% | — | — | — |
| Muller cells | 1,769 | 9.5297096374508% | — | — | — |
| Glial cells | 776 | 4.1803587782147% | — | — | — |
| Cone cells | 765 | 4.1211011151215% | — | — | — |
| Microglia | 312 | 1.6807628077358% | — | — | — |
| Ganglion cells | 284 | 1.5299251198621% | — | — | — |
| Melanocytes | 249 | 1.3413780100199% | — | — | — |
| Horizontal cells | 132 | 0.711091957119% | — | — | — |
| Macrophages | 137 | 0.73802725852502% | — | — | — |
| T cells | 106 | 0.57102838980768% | — | — | — |
| Retinal pigmentary epithelial cells | 814 | 4.3850670689005% | — | — | — |
| Fibroblasts | 690 | 3.7170715940311% | — | — | — |
| Smooth muscle cells | 441 | 2.3756935840112% | — | — | — |
| Endothelial cells | 112 | 0.60335075149491% | — | — | — |
16 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 | Rod cells | 6249 | 33.6637 | Neural cells | #FF00FF |
| celltype | Amacrine cells | 3061 | 16.4898 | Neural cells | #4b0082 |
| celltype | Bipolar cells | 2666 | 14.3619 | Neural cells | #663399 |
| celltype | Muller cells | 1769 | 9.5297 | Neural cells | #483D8B |
| celltype | Retinal pigmentary epithelial cells | 814 | 4.3851 | Epithelial cells | #FF00FF |
| celltype | Glial cells | 776 | 4.1804 | Neural cells | #BA55D3 |
| celltype | Cone cells | 765 | 4.1211 | Neural cells | #7A378B |
| celltype | Fibroblasts | 690 | 3.7171 | Stromal cells | #4CAF50 |
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