Preparations | Requirements | Installation | Cran (tba) | GitHub | Usage | Example data and preparations | Fluidigm to Plink | Output | Estimate errors | Replicates | Calculate pairwise similarities | Get pairwise similarity loci | Similarity Matrix | Run all commands at once | FAQ
Package: Fluidigm 0.2
Fluidigm: Handling Fluidigm Data
Designed to streamline the process of analyzing genotyping data from Fluidigm machines, this package offers a suite of tools for data handling and analysis. It includes functions for converting Fluidigm data to format used by 'PLINK', estimating errors, calculating pairwise similarities, determining pairwise similarity loci, and generating a similarity matrix.
Authors:
Fluidigm_0.2.tar.gz
Fluidigm_0.2.zip(r-4.7)Fluidigm_0.2.zip(r-4.6)Fluidigm_0.2.zip(r-4.5)
Fluidigm_0.2.tgz(r-4.6-any)Fluidigm_0.2.tgz(r-4.5-any)
Fluidigm_0.2.tar.gz(r-4.7-any)Fluidigm_0.2.tar.gz(r-4.6-any)
Fluidigm_0.2.tgz(r-4.6-emscripten)
manual.pdf |manual.html✨
DESCRIPTION
card.svg |card.png
Fluidigm/json (API)
| # Install 'Fluidigm' in R: |
| install.packages('Fluidigm', repos = c('https://fischuu.r-universe.dev', 'https://cloud.r-project.org')) |
Bug tracker:https://github.com/fischuu/fluidigm/issues
Last updated from:e315c14ea5. Checks:9 OK. Indexed: yes.
| Target | Result | Time | Files | Syslog |
|---|---|---|---|---|
| linux-devel-x86_64 | OK | 130 | ||
| source / vignettes | OK | 178 | ||
| linux-release-x86_64 | OK | 124 | ||
| macos-release-arm64 | OK | 91 | ||
| macos-oldrel-arm64 | OK | 134 | ||
| windows-devel | OK | 86 | ||
| windows-release | OK | 84 | ||
| windows-oldrel | OK | 66 | ||
| wasm-release | OK | 140 |
Exports:calculatePairwiseSimilaritiesestimateErrorsfluidigm2PLINKfluidigmAnalysisWrappergetPairwiseSimilarityLocisimilarityMatrix
Dependencies:data.tableplyrRcppreshape
Readme and manuals
Help Manual
| Help page | Topics |
|---|---|
| Run plink to Calculate Pairwise Similarities | calculatePairwiseSimilarities |
| Estimate Errors in 'PLINK'' ped files | estimateErrors |
| Fluidigm | Fluidigm-package Fluidigm |
| Convert Fluidigm Output to 'PLINK' Format | fluidigm2PLINK |
| Run the Fluidigm Analysis Script Together | fluidigmAnalysisWrapper |
| Get Pairwise Similarity Loci | getPairwiseSimilarityLoci |
| Calculate the similarity matrix | similarityMatrix |
