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/SP301_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
31,795
Cells represented in this release
🧬
Total Genes
14,862
Genes represented in the source matrix
🔷
Cell Types
16
Annotated cell-type groups
🫀
Tissues
3
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 | 17,185 | 54.04937883315% | — | — | — |
| T cells | 7,165 | 22.534989778267% | — | — | — |
| Dendritic cells | 95 | 0.29878911778582% | — | — | — |
| Goblet cells | 48 | 0.15096713319704% | — | — | — |
| Alveolar type 2 cells | 1,188 | 3.7364365466268% | — | — | — |
| Alveolar type 1 cells | 350 | 1.1008020128951% | — | — | — |
| Basal cells | 148 | 0.46548199402422% | — | — | — |
| Ciliated cells | 37 | 0.11637049850605% | — | — | — |
| Serous cells | 22 | 0.069193269381978% | — | — | — |
| Fibroblasts | 1,678 | 5.27755936468% | — | — | — |
| Other stromal cells | 61 | 0.19185406510458% | — | — | — |
| Mesothelial cells | 27 | 0.084919012423337% | — | — | — |
| Smooth muscle cells | 199 | 0.62588457304608% | — | — | — |
| Satellite cells | 8 | 0.025161188866174% | — | — | — |
| Type I myonuclei | 5 | 0.015725743041359% | — | — | — |
| Endothelial cells | 3,579 | 11.256486869005% | — | — | — |
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 | Macrophages | 17185 | 54.0494 | Immune cells | #42A5F5 |
| celltype | T cells | 7165 | 22.535 | Immune cells | #E91E63 |
| celltype | Endothelial cells | 3579 | 11.2565 | Endothelial cells | #D4E157 |
| celltype | Fibroblasts | 1678 | 5.2776 | Stromal cells | #FF8A65 |
| celltype | Alveolar type 2 cells | 1188 | 3.7364 | Epithelial cells | #FFA726 |
| celltype | Alveolar type 1 cells | 350 | 1.1008 | Epithelial cells | #42A5F5 |
| celltype | Smooth muscle cells | 199 | 0.6259 | Muscle cells | #9CCC65 |
| celltype | Basal cells | 148 | 0.4655 | Epithelial cells | #2E7D32 |
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