This package is considered a duplicate. The official version of this package is found at:https://agerada.r-universe.dev/MIC

Package: MIC 2.0.1

Alessandro Gerada

MIC: Analysis of Antimicrobial Minimum Inhibitory Concentration Data

Analyse, plot, and tabulate antimicrobial minimum inhibitory concentration (MIC) data. Validate the results of an MIC experiment by comparing observed MIC values to a gold standard assay, in line with standards from the International Organization for Standardization (2021) <https://www.iso.org/standard/79377.html>.

Authors:Alessandro Gerada [aut, cre, cph]

MIC_2.0.1.tar.gz
MIC_2.0.1.tar.gz(r-4.7-any)MIC_2.0.1.tar.gz(r-4.6-any)
MIC_2.0.1.tgz(r-4.6-emscripten)
manual.pdf |manual.html✨
DESCRIPTION |NEWS
card.svg |card.png
MIC/json (API)

# Install 'MIC' in R:

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

Bug tracker:https://github.com/agerada/mic/issues

Datasets:

ecoffs - ECOFF data
example_mics - Example MIC data

On CRAN:

2.54 score 23 scripts 201 downloads 18 exports 31 dependencies

Last updated from:2ea314bdd1. Checks:4 OK. Indexed: no.

Target	Result	Time
linux-devel-x86_64	OK	241
source / vignettes	OK	194
linux-release-x86_64	OK	201
wasm-release	OK	142

Exports:as.sir_vectorised bias clean_raw_mic compare_mic compare_sir essential_agreement fill_dilution_levels force_mic get_mic mic_censor mic_r_breakpoint mic_range mic_s_breakpoint mic_uncensor qc_in_range qc_on_target standardise_mic table

Dependencies:AMR cli cpp11 dplyr farver forcats generics ggh4x ggplot2 glue gtable isoband labeling lifecycle magrittr pillar pkgconfig purrr R6 RColorBrewer rlang S7 scales stringi stringr tibble tidyselect utf8 vctrs viridisLite withr

Citation

Readme and manuals

Help Manual

Help page	Topics
Convert MIC or Disk Diffusion to SIR, vectorised over antimicrobials	as.sir_vectorised
Calculate MIC bias	bias
Clean up raw MIC for use as a feature	clean_raw_mic
Compare and validate MIC values	compare_mic
Compare SIR results and generate categorical agreement	compare_sir
Droplevels for MIC validation object	droplevels.mic_validation
ECOFF data	ecoffs
Essential agreement for MIC validation	essential_agreement
Example MIC data	example_mics
Fill MIC dilution levels	fill_dilution_levels
Force MIC-like into MIC-compatible format	force_mic
Get MIC meta-data from feature database	get_mic
Censor MIC values	mic_censor
R breakpoint for MIC	mic_r_breakpoint
Generate dilution series	mic_range
S breakpoint for MIC	mic_s_breakpoint
Uncensor MICs	mic_uncensor
Plot MIC validation results	plot.mic_validation
Print MIC validation object	print.mic_validation
Print MIC validation summary	print.mic_validation_summary
Check that MIC is within QC range	qc_in_range
Check that QC measurement is at the required target [Experimental]	qc_on_target
Standardise MIC to control strain [Experimental]	standardise_mic
Subset MIC validation object	subset.mic_validation
Summary of MIC validation results	summary.mic_validation
Table	table table.default table.mic_validation

Package: MIC 2.0.1

MIC: Analysis of Antimicrobial Minimum Inhibitory Concentration Data

Citation

Readme and manuals

Help Manual

Usage by other packages (reverse dependencies)