R-universe search: msf

Showing 15 of total 15 results (show query)

framverse

framrsquared:FRAM Database Interface

A convenient tool for interfacing with FRAM access databases in R environments.

Maintained by Ty Garber. Last updated 3 months ago.

14.6 match 6 stars 5.06 score 9 scripts

epicentre-msf

epivis:Tools for visualising epidemiological data

Static visualisation of patient level linelist data.

Maintained by Paul Campbell. Last updated 5 months ago.

15.0 match 3 stars 4.13 score 3 scripts

epicentre-msf

redcap:R Utilities For REDCap

R utilities for interacting with the REDCap API.

Maintained by Patrick Barks. Last updated 1 hours ago.

15.0 match 7 stars 3.50 score 5 scripts

epicentre-msf

hmatch:Tools for Cleaning and Matching Hierarchically-Structured Data

Tools for matching raw, potentially messy hierarchical data (e.g. province, county, township) against a reference dataset.

Maintained by Patrick Barks. Last updated 1 years ago.

15.0 match 10 stars 3.43 score 27 scripts

r4epi

sitrep:Report templates and helper functions for applied epidemiology

Report templates and helper functions for applied epidemiology.

Maintained by Alexander Spina. Last updated 26 days ago.

epidemiology msf outbreaks report-generator

11.0 match 41 stars 4.46 score 9 scripts

epicentre-msf

queryr:Data Validation Queries With Tidy Output

Data validation queries with tidy, stackable output.

Maintained by Patrick Barks. Last updated 8 months ago.

15.0 match 4 stars 3.08 score 8 scripts 2 dependents

epicentre-msf

epishiny:Tools for interactive visualisation of epidemiological data

Time, place and person analysis using the R shiny web-framework.

Maintained by Paul Cambpell. Last updated 1 years ago.

15.0 match 10 stars 2.81 score 13 scripts

r4epi

epidict:Epidemiology data dictionaries and random data generators

The 'R4EPIs' project <https://R4epis.netlify.com> seeks to provide a set of standardized tools for analysis of outbreak and survey data in humanitarian aid settings. This package currently provides standardized data dictionaries from MSF OCA for four outbreak scenarios (Acute Jaundice Syndrome, Cholera, Measles, Meningitis) and three surveys (Retrospective mortality and access to care, Malnutrition, and Vaccination coverage). In addition, a data generator from these dictionaries is provided.

Maintained by Alexander Spina. Last updated 26 days ago.

9.0 match 3 stars 4.43 score 5 scripts 1 dependents

epicentre-msf

dbc:Dictionary-Based Cleaning

Tools for dictionary-based data cleaning.

Maintained by Patrick Barks. Last updated 1 years ago.

15.0 match 2 stars 2.48 score 4 scripts 1 dependents

epicentre-msf

qxl:Quick Customized Excel Files

A wrapper to the openxlsx package optimized for writing flat data structures.

Maintained by Patrick Barks. Last updated 1 years ago.

15.0 match 5 stars 2.40 score 7 scripts

epicentre-msf

nmatch:Fuzzy Matching For Proper Names

Tools for comparing sets of proper names, accounting for common types of variation in format and style.

Maintained by Patrick Barks. Last updated 5 months ago.

15.0 match 2.00 score 3 scripts

epicentre-msf

rpxl:Read Password-Protected Excel Files

Uses the Python library msoffcrypto-tool to decrypt password-protected Excel files, which can then be read into R using readxl, readxlsb, or other packages.

Maintained by Patrick Barks. Last updated 8 months ago.

15.0 match 1.70 score 3 scripts

cran

bios2mds:From Biological Sequences to Multidimensional Scaling

Utilities dedicated to the analysis of biological sequences by metric MultiDimensional Scaling with projection of supplementary data. It contains functions for reading multiple sequence alignment files, calculating distance matrices, performing metric multidimensional scaling and visualizing results.

Maintained by Marie Chabbert. Last updated 5 years ago.

4.0 match 1 stars 1.90 score

cran

infinitefactor:Bayesian Infinite Factor Models

Sampler and post-processing functions for semi-parametric Bayesian infinite factor models, motivated by the Multiplicative Gamma Shrinkage Prior of Bhattacharya and Dunson (2011) <https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3419391/>. Contains component C++ functions for building samplers for linear and 2-way interaction factor models using the multiplicative gamma and Dirichlet-Laplace shrinkage priors. The package also contains post processing functions to return matrices that display rotational ambiguity to identifiability through successive application of orthogonalization procedures and resolution of column label and sign switching. This package was developed with the support of the National Institute of Environmental Health Sciences grant 1R01ES028804-01.

Maintained by Evan Poworoznek. Last updated 5 years ago.

openblas cpp openmp

3.3 match 1.70 score

cran

Bios2cor:From Biological Sequences and Simulations to Correlation Analysis

Utilities for computation and analysis of correlation/covariation in multiple sequence alignments and in side chain motions during molecular dynamics simulations. Features include the computation of correlation/covariation scores using a variety of scoring functions between either sequence positions in alignments or side chain dihedral angles in molecular dynamics simulations and utilities to analyze the correlation/covariation matrix through a variety of tools including network representation and principal components analysis. In addition, several utility functions are based on the R graphical environment to provide friendly tools for help in data interpretation. Examples of sequence covariation analysis are provided in: (1) Pele J, Moreau M, Abdi H, Rodien P, Castel H, Chabbert M (2014) <doi:10.1002/prot.24570> and (2) Taddese B, Deniaud M, Garnier A, Tiss A, Guissouma H, Abdi H, Henrion D, Chabbert M (2018) <doi:10.1371/journal.pcbi.1006209>. An example of side chain correlated motion analysis is provided in: Taddese B, Garnier A, Abdi H, Henrion D, Chabbert M (2020) <doi:10.1038/s41598-020-72766-1>. This work was supported by the French National Research Agency (Grant number: ANR-11-BSV2-026) and by GENCI (Grant number: 100567).

Maintained by Marie Chabbert. Last updated 5 months ago.

4.0 match 1 stars 1.00 score