Load mouse ESCs raw count matrix | Load in vivo mouse datasets | Compute markers for selected in vivo stages | Select only black/white markers for in vivo stages | Run SCOPRO | Visualization of conserved/ not conserved genes between late 2 cells stage and in vitro clusters
Package: SCOPRO 0.1.0
SCOPRO: Score Projection Between in 'Vivo' and in 'Vitro' Datasets
Assigns a score projection from 0 to 1 between a given in 'vivo' stage and each single cluster from an in 'vitro' dataset. The score is assigned based on the the fraction of specific markers of the in 'vivo' stage that are conserved in the in 'vitro' clusters <https://github.com/ScialdoneLab>.
Authors:
SCOPRO_0.1.0.tar.gz
SCOPRO_0.1.0.zip(r-4.7-any)SCOPRO_0.1.0.zip(r-4.6-any)SCOPRO_0.1.0.zip(r-4.5-any)
SCOPRO_0.1.0.tgz(r-4.6-any)SCOPRO_0.1.0.tgz(r-4.5-any)
SCOPRO_0.1.0.tar.gz(r-4.7-any)SCOPRO_0.1.0.tar.gz(r-4.6-any)
SCOPRO_0.1.0.tgz(r-4.6-emscripten)
manual.pdf |manual.html✨
DESCRIPTION
card.svg |card.png
SCOPRO/json (API)
| # Install 'SCOPRO' in R: |
| install.packages('SCOPRO', repos = c('https://gabrielelubatti.r-universe.dev', 'https://cloud.r-project.org')) |
Bug tracker:https://github.com/scialdonelab/scopro/issues
Last updated from:d1962de08f. Checks:9 OK. Indexed: yes.
| Target | Result | Time | Files | Syslog |
|---|---|---|---|---|
| linux-devel | OK | 221 | ||
| source / vignettes | OK | 266 | ||
| linux-release | OK | 189 | ||
| macos-release | OK | 165 | ||
| macos-oldrel | OK | 204 | ||
| windows-devel | OK | 69 | ||
| windows-release | OK | 70 | ||
| windows-oldrel | OK | 70 | ||
| wasm-release | OK | 110 |
Exports:filter_in_vitroplot_scoreplot_score_genesSCOPROselect_common_genesselect_no_common_genesselect_top_markers
Dependencies:clicpp11farverggplot2gluegtableisobandlabelinglifecycleR6RColorBrewerrlangS7scalesvctrsviridisLitewithr
Readme and manuals
Help Manual
| Help page | Topics |
|---|---|
| filter_in_vitro | filter_in_vitro |
| plot_score | plot_score |
| plot_score_genes | plot_score_genes |
| SCOPRO | SCOPRO |
| select_common_genes | select_common_genes |
| select_no_common_genes | select_no_common_genes |
| select_top_markers | select_top_markers |