Comparison of HiTMapper with manual gating and other algorithms as well as several analysis perspectives
| Dataset | Cytometry Modality | Description | Reference |
|---|---|---|---|
| Levine Benchmark Data | Mass Cytometry (CyTOF) | The data set is a 32-dimensional mass cytometry (CyTOF) data set, consisting of protein expression levels for n = 265,627 cells, p = 32 protein markers (dimensions), and k = 14 manually gated cell populations (clusters), from h = 2 individuals. Cluster labels are available for 39% (104,184) of the cells. | Levine et al. (2015) |
| COVID Vaccine (Day ?) | Mass Cytometry (CyTOF) | Description | Mathew, Giles, Baxter, Oldridge, Greenplate, Wu, Alanio, et al. (2020) |
| Acute COVID (Day 0 and Day 7) | Mass Cytometry (CyTOF) | Description | Mathew, Giles, Baxter, Oldridge, Greenplate, Wu, Alanio, et al. (2020) |
| Acute COVID (Day ?) | Flow Cytometry | Small subset of the acute COVID flow cytometry data | Mathew, Giles, Baxter, Oldridge, Greenplate, Wu, Alanio, et al. (2020) |
Comparison of HiTMapper, FlowSOM, Rphenograph, and FastPG using 32-dimensional CyTOF data from Levine et al
| Method | Description | Reference | GitHub |
|---|---|---|---|
| HiTMapper | Description | Version | HiTMapper Code |
| FlowSOM | Description | Version | FlowSOM Code |
| Rphenograph | Description | Version | Rphenograph Code |
| FastPG | Description | Version | FastPG Code |
- Additionally, there's a command-line implementation of FastPG by MCMICRO, https://github.com/labsyspharm/mcmicro-fastPG
- Led by Matei Ionita
- Acute COVID (Day ?)
- COVID Vaccine (Day ?)
- Led by Van Truong
- Acute Covide (Day 0 and Day 7)