Package: TrajectoryGeometry 1.20.0
Michael Shapiro
TrajectoryGeometry: This Package Discovers Directionality in Time and Pseudo-times Series of Gene Expression Patterns
Given a time series or pseudo-times series of gene expression data, we might wish to know: Do the changes in gene expression in these data exhibit directionality? Are there turning points in this directionality. Do different subsets of the data move in different directions? This package uses spherical geometry to probe these sorts of questions. In particular, if we are looking at (say) the first n dimensions of the PCA of gene expression, directionality can be detected as the clustering of points on the (n-1)-dimensional sphere.
Authors:
TrajectoryGeometry_1.20.0.tar.gz
TrajectoryGeometry_1.20.0.zip(r-4.7)TrajectoryGeometry_1.20.0.zip(r-4.6)TrajectoryGeometry_1.20.0.zip(r-4.5)
TrajectoryGeometry_1.20.0.tgz(r-4.6-any)TrajectoryGeometry_1.20.0.tgz(r-4.5-any)
TrajectoryGeometry_1.20.0.tar.gz(r-4.7-any)TrajectoryGeometry_1.20.0.tar.gz(r-4.6-any)
TrajectoryGeometry_1.20.0.tgz(r-4.6-emscripten)
manual.pdf |manual.html✨
card.svg |card.png
TrajectoryGeometry/json (API)
NEWS
| # Install 'TrajectoryGeometry' in R: |
| install.packages('TrajectoryGeometry', repos = c('https://bioc-release.r-universe.dev', 'https://cloud.r-project.org')) |
- chol_answers - Chol_answers
- chol_attributes - Chol_attributes
- chol_branch_point_results - Chol_branch_point_results
- chol_pseudo_time - Chol_pseudo_time
- chol_pseudo_time_normalised - Chol_pseudo_time_normalised
- crooked_path - Crooked path
- crooked_path_center - Crooked path center
- crooked_path_projection - Crooked path projection
- crooked_path_radius - Crooked path radius
- hep_answers - Hep_answers
- hep_attributes - Hep_attributes
- hep_pseudo_time - Hep_pseudo_time
- hep_pseudo_time_normalised - Hep_pseudo_time_normalised
- oscillation - Oscillation
- single_cell_matrix - Single_cell_matrix
- straight_path - Straight path
- straight_path_center - Straight path center
- straight_path_projection - Straight path projection
- straight_path_radius - Straight path radius
On BioConductor:TrajectoryGeometry-1.21.0(bioc 3.24)TrajectoryGeometry-1.20.0(bioc 3.23)
This package does not link to any Github/Gitlab/R-forge repository. No issue tracker or development information is available.
biologicalquestionstatisticalmethodgeneexpressionsinglecell
Last updated from:da60a5cdac (on RELEASE_3_23). Checks:1 WARNING, 7 NOTE, 2 OK. Indexed: no.
| Target | Result | Time | Files | Syslog |
|---|---|---|---|---|
| bioc-checks | WARNING | 205 | ||
| linux-devel-x86_64 | NOTE | 265 | ||
| source / vignettes | OK | 375 | ||
| linux-release-x86_64 | NOTE | 231 | ||
| macos-release-arm64 | NOTE | 116 | ||
| macos-oldrel-arm64 | NOTE | 112 | ||
| windows-devel | NOTE | 126 | ||
| windows-release | NOTE | 120 | ||
| windows-oldrel | NOTE | 130 | ||
| wasm-release | OK | 145 |
Exports:analyseBranchPointanalyseSingleCellTrajectorycircleOnTheUnitSpheredistanceBetweenTrajectoriesfindSphereClusterCenterfindSphericalDistancegenerateRandomPathsgenerateRandomUnitVectorgetDistanceDataForPathsgetSphericalDatagetStepLengthsorthonormalBasispathProgressionpathToSphericalDataplotPathProjectionCenterAndCircleprojectPathToSpheresamplePathtestPathForDirectionalityvisualiseBranchPointStatsvisualiseTrajectoryStats
Dependencies:base64encbslibcachemclicpp11digestevaluatefarverfastmapfontawesomefsggplot2gluegtablehighrhtmltoolshtmlwidgetsisobandjquerylibjsonliteknitrlabelinglifecyclemagrittrmemoisemimepracmaR6rappdirsRColorBrewerrglrlangrmarkdownS7sassscalestinytexvctrsviridisLitewithrxfunyaml
