Package: protein8k 0.0.2

protein8k: Perform Analysis and Create Visualizations of Proteins

Read Protein Data Bank (PDB) files, performs its analysis, and presents the result using different visualization types including 3D. The package also has additional capability for handling Virus Report data from the National Center for Biotechnology Information (NCBI) database. Nature Structural Biology 10, 980 (2003) <doi:10.1038/nsb1203-980>. US National Library of Medicine (2021) <https://www.ncbi.nlm.nih.gov/datasets/docs/reference-docs/data-reports/virus/>.

Authors:Simon Liles [aut, cre]

protein8k_0.0.2.tar.gz
protein8k_0.0.2.zip(r-4.7)protein8k_0.0.2.zip(r-4.6)protein8k_0.0.2.zip(r-4.5)
protein8k_0.0.2.tgz(r-4.6-any)protein8k_0.0.2.tgz(r-4.5-any)
protein8k_0.0.2.tar.gz(r-4.7-any)protein8k_0.0.2.tar.gz(r-4.6-any)
protein8k_0.0.2.tgz(r-4.6-emscripten)
manual.pdf |manual.html✨
DESCRIPTION
card.svg |card.png
protein8k/json (API)

# Install 'protein8k' in R:

install.packages('protein8k', repos = c('https://simonliles.r-universe.dev', 'https://cloud.r-project.org'))

Bug tracker:https://github.com/simonliles/protein8k/issues

Datasets:

p53_tetramerization - P53 Tetramerization Domain Crystal Structure

On CRAN:

pdb protein protein-structure

4.00 score 1 stars 6 scripts 539 downloads 11 exports 53 dependencies

Last updated from:3f93b11a4e. Checks:9 OK. Indexed: yes.

Target	Result	Time
linux-devel-x86_64	OK	139
source / vignettes	OK	200
linux-release-x86_64	OK	153
macos-release-arm64	OK	167
macos-oldrel-arm64	OK	162
windows-devel	OK	91
windows-release	OK	86
windows-oldrel	OK	76
wasm-release	OK	126

Exports:fromJSONL getAtomicRecord getTitleSection plot3D plotModels Protein3D read.pdb report_as_dataframe summary summary.Protein write_viz

Dependencies:base64enc bslib cachem cli commonmark cpp11 curl digest dplyr farver fastmap fontawesome fs generics ggplot2 glue gridExtra gtable htmltools httpuv isoband jquerylib jsonlite labeling later lattice lifecycle magick magrittr memoise mime otel pillar pkgconfig promises R6 rappdirs RColorBrewer Rcpp rjson rlang S7 sass scales shiny sourcetools tibble tidyselect utf8 vctrs viridisLite withr xtable

Using plot3D()

Rendered fromusing_plot3D.Rmdusingknitr::rmarkdown

Last update: 2021-04-25
Started: 2021-04-25

Introduction to protein8k

Creating a Protein Object | Inspecting Protein data. | What is inside a Protein Object | Plotting a Protein Object | Generating 3D Plots | Generating smoothing models of Protein Structure | -----

Rendered fromintro_protein8k.Rmdusingknitr::rmarkdown

Last update: 2021-04-24
Started: 2021-04-02

Citation

Development and contributors

Readme and manuals

Help Manual

Help page	Topics
fromJSONL	fromJSONL
getAtomicRecord	getAtomicRecord
getTitleSection	getTitleSection
P53 Tetramerization Domain Crystal Structure	p53_tetramerization
plot3D	plot3D
plotModels	plotModels
Protein Class Definitions	Protein-class
plot3DInteractive	Protein3D
read.pdb	read.pdb
report_as_dataframe	report_as_dataframe
summary.Protein	summary summary,Protein,ANY-method summary,Protein-method
summary.Protein	summary.Protein
write_viz	write_viz