Package: archaeacentre 1.1.0

Richard Stöckl

archaeacentre: Default plots and functions for the German Archaea Centre

Default plots and functions for the German Archaea Centre.

Authors:Richard Stöckl [aut, cre]

archaeacentre_1.1.0.tar.gz
archaeacentre_1.1.0.zip(r-4.7)archaeacentre_1.1.0.zip(r-4.6)archaeacentre_1.1.0.zip(r-4.5)
archaeacentre_1.1.0.tgz(r-4.6-any)archaeacentre_1.1.0.tgz(r-4.5-any)
archaeacentre_1.1.0.tar.gz(r-4.7-any)archaeacentre_1.1.0.tar.gz(r-4.6-any)
archaeacentre_1.1.0.tgz(r-4.6-emscripten)
manual.pdf |manual.html✨
DESCRIPTION |NEWS
card.svg |card.png
archaeacentre/json (API)

# Install 'archaeacentre' in R:

install.packages('archaeacentre', repos = c('https://richardstoeckl.r-universe.dev', 'https://cloud.r-project.org'))

Bug tracker:https://github.com/richardstoeckl/archaeacentre/issues

Datasets:

growthData - Example Dataset for microbial Growth Curves

On CRAN:

2.70 score 2 scripts 3 exports 83 dependencies

Last updated from:c27de77fd9 (on v1.1.0). Checks:7 NOTE, 2 OK. Indexed: yes.

Target	Result	Time	Files	Syslog
linux-devel-x86_64	NOTE	167
source / vignettes	OK	224
linux-release-x86_64	NOTE	165
macos-release-arm64	NOTE	83
macos-oldrel-arm64	NOTE	91
windows-devel	NOTE	135
windows-release	NOTE	95
windows-oldrel	NOTE	94
wasm-release	OK	159

Exports:%>%get_pfam_annotation_for_targets plotGrowthCurve

Dependencies:abind askpass backports boot broom car carData cli colorspace corrplot cowplot cpp11 curl Deriv doBy dplyr farver forecast Formula fracdiff generics ggplot2 ggpubr ggrepel ggsci ggsignif glue gridExtra gtable httr isoband jsonlite labeling lattice lifecycle lme4 lmtest magrittr MASS Matrix MatrixModels mgcv mime minqa modelr nlme nloptr nnet numDeriv openssl pbkrtest pillar pkgconfig polynom purrr quantreg R6 rbibutils RColorBrewer Rcpp RcppArmadillo RcppEigen Rdpack reformulas rlang rstatix S7 scales SparseM stringi stringr survival sys tibble tidyr tidyselect timeDate urca utf8 vctrs viridisLite withr zoo

Introduction to the archaeacentre package

Basics | Install archaeacentre | Presets for growth curves of microbial growth data | Plot a basic growth curve | Modify your growth curve plot | Get PDB Annotation data for a given PDB filename as returned by Foldseek

Rendered fromarchaeacentre.Rmdusingknitr::rmarkdown

Last update: 2025-02-10
Started: 2025-02-03

Citation

Development and contributors

Readme and manuals

Help Manual

Help page	Topics
Retrieve Pfam Annotations for PDB Targets from RCSB API	get_pfam_annotation_for_targets
Retrieve Polymer Entity Identifiers and Pfam Annotations from RCSB API (batched)	get_polymer_info
Example Dataset for microbial Growth Curves	growthData
Plot a microbial growth curve	plotGrowthCurve

Usage by other packages (reverse dependencies)