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/SP021_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
18,996
Cells represented in this release
🧬
Total Genes
16,663
Genes represented in the source matrix
🔷
Cell Types
18
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 | 4,808 | 25.310591703517% | — | — | — |
| Amacrine cells | 2,777 | 14.618867129922% | — | — | — |
| Bipolar cells | 1,704 | 8.9703095388503% | — | — | — |
| Muller cells | 1,323 | 6.9646241313961% | — | — | — |
| Ganglion cells | 307 | 1.6161297115182% | — | — | — |
| Melanocytes | 307 | 1.6161297115182% | — | — | — |
| Cone cells | 162 | 0.85281111813013% | — | — | — |
| Microglia | 159 | 0.83701831964624% | — | — | — |
| Horizontal cells | 156 | 0.82122552116235% | — | — | — |
| Glial cells | 110 | 0.57906927774268% | — | — | — |
| Oligodendrocytes | 88 | 0.46325542219415% | — | — | — |
| Schwann cells | 35 | 0.1842493156454% | — | — | — |
| Macrophages | 949 | 4.995788587071% | — | — | — |
| T cells | 751 | 3.9534638871341% | — | — | — |
| Retinal pigmentary epithelial cells | 1,137 | 5.9854706253948% | — | — | — |
| Fibroblasts | 1,632 | 8.5912823752369% | — | — | — |
| Smooth muscle cells | 2,346 | 12.349968414403% | — | — | — |
| Endothelial cells | 245 | 1.2897452095178% | — | — | — |
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 | Rod cells | 4808 | 25.3106 | Neural cells | #FF00FF |
| celltype | Amacrine cells | 2777 | 14.6189 | Neural cells | #4b0082 |
| celltype | Smooth muscle cells | 2346 | 12.35 | Muscle cells | #78909C |
| celltype | Bipolar cells | 1704 | 8.9703 | Neural cells | #663399 |
| celltype | Fibroblasts | 1632 | 8.5913 | Stromal cells | #4CAF50 |
| celltype | Muller cells | 1323 | 6.9646 | Neural cells | #483D8B |
| celltype | Retinal pigmentary epithelial cells | 1137 | 5.9855 | Epithelial cells | #FF00FF |
| celltype | Macrophages | 949 | 4.9958 | Immune cells | #FF7043 |
First 8 rows