ATLAS / POST-QC DATASET
Atlas / Post-QC Dataset Statistics System › sys04
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/sys04/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
40,811
Cells represented in this release
🧬
Total Genes
15,892
Genes represented in the source matrix
🔷
Cell Types
12
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% |
|---|---|---|---|---|---|
| T cells | 1,923 | 4.7119649114209% | — | — | — |
| Macrophages | 1,615 | 3.9572664232682% | — | — | — |
| B cells | 661 | 1.6196613658082% | — | — | — |
| Alveolar type 2 cells | 11,692 | 28.649138712602% | — | — | — |
| Club cells | 11,684 | 28.629536154468% | — | — | — |
| Ciliated cells | 4,167 | 10.210482467962% | — | — | — |
| Alveolar type 1 cells | 1,599 | 3.9180613070006% | — | — | — |
| Mesothelial cells | 152 | 0.37244860454289% | — | — | — |
| Neuroendocrine cells | 77 | 0.18867462203818% | — | — | — |
| Fibroblasts | 1,470 | 3.6019700570925% | — | — | — |
| Smooth muscle cells | 269 | 0.65913601725025% | — | — | — |
| Endothelial cells | 5,502 | 13.481659356546% | — | — | — |
12 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 | Alveolar type 2 cells | 11692 | 28.6491 | Epithelial cells | #0000CD |
| celltype | Club cells | 11684 | 28.6295 | Epithelial cells | #6495ED |
| celltype | Endothelial cells | 5502 | 13.4817 | Endothelial cells | #00FFFF |
| celltype | Ciliated cells | 4167 | 10.2105 | Epithelial cells | #5F9EA0 |
| celltype | T cells | 1923 | 4.712 | Immune cells | #DC143C |
| celltype | Macrophages | 1615 | 3.9573 | Immune cells | #E9967A |
| celltype | Alveolar type 1 cells | 1599 | 3.9181 | Epithelial cells | #00008B |
| celltype | Fibroblasts | 1470 | 3.602 | Stromal cells | #008000 |
First 8 rows