Package: fastqcr 0.1.3.999
fastqcr: Quality Control of Sequencing Data
'FASTQC' is the most widely used tool for evaluating the quality of high throughput sequencing data. It produces, for each sample, an html report and a compressed file containing the raw data. If you have hundreds of samples, you are not going to open up each 'HTML' page. You need some way of looking at these data in aggregate. 'fastqcr' Provides helper functions to easily parse, aggregate and analyze 'FastQC' reports for large numbers of samples. It provides a convenient solution for building a 'Multi-QC' report, as well as, a 'one-sample' report with result interpretations.
Authors:
fastqcr_0.1.3.999.tar.gz
fastqcr_0.1.3.999.zip(r-4.7-any)fastqcr_0.1.3.999.zip(r-4.6-any)fastqcr_0.1.3.999.zip(r-4.5-any)
fastqcr_0.1.3.999.tgz(r-4.6-any)fastqcr_0.1.3.999.tgz(r-4.5-any)
fastqcr_0.1.3.999.tar.gz(r-4.7-any)fastqcr_0.1.3.999.tar.gz(r-4.6-any)
fastqcr_0.1.3.999.tgz(r-4.6-emscripten)
manual.pdf |manual.html✨
DESCRIPTION |NEWS
card.svg |card.png
fastqcr/json (API)
| # Install 'fastqcr' in R: |
| install.packages('fastqcr', repos = c('https://kassambara.r-universe.dev', 'https://cloud.r-project.org')) |
Bug tracker:https://github.com/kassambara/fastqcr/issues
Last updated from:e7b2fe7a61. Checks:9 OK. Indexed: yes.
| Target | Result | Time | Files | Syslog |
|---|---|---|---|---|
| linux-devel | OK | 160 | ||
| source / vignettes | OK | 176 | ||
| linux-release | OK | 181 | ||
| macos-release | OK | 78 | ||
| macos-oldrel | OK | 104 | ||
| windows-devel | OK | 92 | ||
| windows-release | OK | 92 | ||
| windows-oldrel | OK | 106 | ||
| wasm-release | OK | 111 |
Exports:fastqcfastqc_installqc_aggregateqc_failsqc_plotqc_plot_collectionqc_problemsqc_readqc_read_collectionqc_reportqc_statsqc_unzipqc_warns
Dependencies:askpassbase64encbitbit64bslibcachemclicliprcpp11crayoncurldigestdplyrevaluatefarverfastmapfontawesomefsgenericsggplot2gluegridExtragtablehighrhmshtmltoolshttrisobandjquerylibjsonliteknitrlabelinglifecyclemagrittrmemoisemimeopensslpillarpkgconfigprettyunitsprogresspurrrR6rappdirsRColorBrewerreadrrlangrmarkdownrvestS7sassscalesselectrstringistringrsystibbletidyrtidyselecttinytextzdbutf8vctrsviridisLitevroomwithrxfunxml2yaml
Readme and manuals
Help Manual
| Help page | Topics |
|---|---|
| Run FastQC Tool | fastqc |
| Install FastQC Tool | fastqc_install |
| Aggregate FastQC Reports for Multiple Samples | qc_aggregate qc_stats summary.qc_aggregate |
| Inspect Problems in Aggregated FastQC Reports | qc_fails qc_problems qc_warns |
| Plot FastQC Results | print.qctable qc_plot |
| Plot FastQC Results of multiple samples | qc_plot_collection |
| Read FastQC Data | qc_read |
| Read a collection of FastQC data files | qc_read_collection |
| Build a QC Report | qc_report |
| Unzip Files in the FastQC Result Directory | qc_unzip |