Package: GWASinspector 1.7.1
Alireza Ani
GWASinspector: Comprehensive and Easy to Use Quality Control of GWAS Results
When evaluating the results of a genome-wide association study (GWAS), it is important to perform a quality control to ensure that the results are valid, complete, correctly formatted, and, in case of meta-analysis, consistent with other studies that have applied the same analysis. This package was developed to facilitate and streamline this process and provide the user with a comprehensive report.
Authors:
GWASinspector_1.7.1.tar.gz
GWASinspector_1.7.1.tar.gz(r-4.5-noble)GWASinspector_1.7.1.tar.gz(r-4.4-noble)
GWASinspector_1.7.1.tgz(r-4.4-emscripten)GWASinspector_1.7.1.tgz(r-4.3-emscripten)
GWASinspector.pdf |GWASinspector.html✨
GWASinspector/json (API)
NEWS
| # Install 'GWASinspector' in R: |
| install.packages('GWASinspector', repos = c('https://cran.r-universe.dev', 'https://cloud.r-project.org')) |
This package does not link to any Github/Gitlab/R-forge repository. No issue tracker or development information is available.
Last updated 6 months agofrom:b8c9ac05ea. Checks:OK: 2. Indexed: yes.
| Target | Result | Date |
|---|---|---|
| Doc / Vignettes | OK | Nov 03 2024 |
| R-4.5-linux | OK | Nov 03 2024 |
Exports:compare_GWASsdemo_inspectorget_configget_headerTranslationmanhattan_plotresult_inspectorrun_inspectorsetup_inspectorsystem_check
Dependencies:base64encbitbit64blobbslibcachemclicolorspacecpp11data.tableDBIdigestevaluatefansifarverfastmapfontawesomeformatRfsfutile.loggerfutile.optionsggplot2gluegridExtragtablehashhighrhtmltoolsiniisobandjquerylibjsonlitekableExtraknitrlabelinglambda.rlatticelifecyclemagrittrMASSMatrixmemoisemgcvmimemunsellnlmeopenxlsxpillarpkgconfigplogrR.methodsS3R.ooR.utilsR6rappdirsRColorBrewerRcpprlangrmarkdownRSQLiterstudioapisassscalesstringistringrsvglitesystemfontstibbletinytexutf8vctrsviridisLitewithrxfunxml2yamlzip
Readme and manuals
Help Manual
| Help page | Topics |
|---|---|
| Compare summary statistics of GWAS result files | compare_GWASs |
| Runs an example QC | demo_inspector |
| Copies the template configuration file to the local machine | get_config |
| Copies the template header translation table to the local machine | get_headerTranslation |
| Comprehensive and Easy to Use Quality Control of GWAS Results | GWASinspector-package GWASinspector |
| An S4 class to represent the methods and parameters for inspecting a list of GWAS study result files. | Inspector Inspector-class |
| Creates the Manhattan plot | manhattan_plot |
| Displays a brief report after running the QC pipeline | result_inspector |
| Runs the QC pipeline on a set of GWAS result files | run_inspector |
| Importing a configuration file into R for setting the pipeline parameters | setup_inspector |
| An S4 class to represent an inspected GWAS study result file. | Study Study-class |
| An S4 class to represent a list of inspected GWAS study result files. | StudyList StudyList-class |
| Checks which required and optional packages are available | system_check |