Introduction | Getting Started | Installation and loading | Importing and exporting data | Information about data | Information about methods | Quick reference | Navigating through SIGHTS | Choose Normalization Method | Replicates of Lowest Concentration (Exp1R1-Exp1R3) | Replicates of 9^th^ Concentration (Exp9R1-Exp9R3) | Statistical Testing | Advanced Plotting | Basic modifications | Extended modifications | References
Package: sights 1.39.0
Elika Garg
sights: Statistics and dIagnostic Graphs for HTS
SIGHTS is a suite of normalization methods, statistical tests, and diagnostic graphical tools for high throughput screening (HTS) assays. HTS assays use microtitre plates to screen large libraries of compounds for their biological, chemical, or biochemical activity.
Authors:
sights_1.39.0.tar.gz
sights_1.39.0.zip(r-4.7)sights_1.39.0.zip(r-4.6)sights_1.39.0.zip(r-4.5)
sights_1.39.0.tgz(r-4.6-any)sights_1.39.0.tgz(r-4.5-any)
sights_1.39.0.tar.gz(r-4.7-any)sights_1.39.0.tar.gz(r-4.6-any)
sights_1.39.0.tgz(r-4.6-emscripten)
manual.pdf |manual.html✨
DESCRIPTION |NEWS
card.svg |card.png
sights/json (API)
| # Install 'sights' in R: |
| install.packages('sights', repos = c('https://bioc.r-universe.dev', 'https://cloud.r-project.org')) |
Bug tracker:https://github.com/eg-r/sights/issues
Datasets:
- ex_dataMatrix - High-Throughput Screening example data - CMBA
- inglese - High-Throughput Screening example data - Inglese
On BioConductor:sights-1.39.0(bioc 3.24)sights-1.38.0(bioc 3.23)
immunooncologycellbasedassaysmicrotitreplateassaynormalizationmultiplecomparisonpreprocessingqualitycontrolbatcheffectvisualization
Last updated from:3b52936b34. Checks:1 WARNING, 9 OK. Indexed: yes.
| Target | Result | Time | Files | Syslog |
|---|---|---|---|---|
| bioc-checks | WARNING | 174 | ||
| linux-devel-x86_64 | OK | 257 | ||
| source / vignettes | OK | 229 | ||
| linux-release-x86_64 | OK | 199 | ||
| macos-release-arm64 | OK | 125 | ||
| macos-oldrel-arm64 | OK | 97 | ||
| windows-devel | OK | 184 | ||
| windows-release | OK | 139 | ||
| windows-oldrel | OK | 157 | ||
| wasm-release | OK | 149 |
Exports:normLoessnormMedFilnormRnormRobZnormSightsnormSPAWNnormZplot3dplotAutocoplotBoxplotHeatmapplotHistplotIGFitplotScatterplotSightsstatFDRstatRVMstatSightsstatT
Dependencies:clicpp11farverggplot2gluegtableisobandlabelinglatticelifecyclemagrittrMASSplyrqvalueR6RColorBrewerRcppreshape2rlangS7scalesstringistringrvctrsviridisLitewithr
Readme and manuals
Help Manual
| Help page | Topics |
|---|---|
| High-Throughput Screening example data - CMBA | ex_dataMatrix |
| High-Throughput Screening example data - Inglese | inglese |
| Normalization by loess method | normLoess |
| Normalization by median filter method | normMedFil |
| Normalization by R score method | normR |
| Normalization by robust Z score method | normRobZ |
| Normalization methods | normSights |
| Normalization by SPAWN method | normSPAWN |
| Normalization by Z score method | normZ |
| 3D plot | plot3d |
| Auto-correlation | plotAutoco |
| Boxplot | plotBox |
| Heat map | plotHeatmap |
| Histogram | plotHist |
| Inverse gamma | plotIGFit |
| Scatter plot | plotScatter |
| Graphical devices | plotSights |
| FDR control | statFDR |
| RVM Test | statRVM |
| Statistical methods | statSights |
| t-test | statT |
