Useful packages

R Packages

Basic utilities

Package	Description	By
dplyr	A grammar of data manipulation	tidyverse
tidyr	Tidy data with spread and gather functions	tidyverse
purrr	A functional programming toolkit	tidyverse
plyr	llply() and ldply() as for-loop replacements	Hadley Wickham
tibble	Modern reimagining of the data.frame	tidyverse
data.table	Alternative data frame. Quicker for big datasets	Tyson Barrett
recipes	Preprocessing pipelines	tidyverse
groupdata2	Create groups, folds and partitions	Ludvig Olsen
rearrr	Transform and rearrrange data	Ludvig Olsen

Text manipulation

Package	Description	By
stringr	String manipulation	tidyverse
tidytext	Tidy text analysis	Julia Silge, David Robinson
quanteda	Quantitative analysis of text	quanteda
spacyr	spaCy API for R	quanteda
sentida	Sentiment analysis	Lars Kjartan Bacher Svendsen, Jacob Aarup Dalsgaard, Gustav Aarup Lauridsen

Modeling

Package	Description	By
lme4	Linear mixed-effects models	Douglas Bates, et al.
brms	Bayesian modeling	Paul-Christian Bürkner
cvms	Evaluation and cross-validation of models	Ludvig Olsen
parsnip	Tidy, unified interface to model functions	tidymodels
superlearner	Ensemble methods	Eric Polley, et al.
keras	Deep learning framework	Daniel Falbel, et al.
tensorflow	Deep learning framework	Daniel Falbel, et al.
mlr3	Object-oriented machine learning framework	Michel Lang, et al.
e1071	Different model functions	David Meyer, et al.
performance	Evaluating performance of models	easystats
yardstick	Evaluation metrics	tidymodels
insight	Extract model attributes	easystats
MuMIn	Model object metrics	Kamil Bartoń

Visualization

Package	Description	By
ggplot2	Make plots	tidyverse
patchwork	Combine separate ggplots	Thomas Lin Pedersen
ggforce	Accelerating ggplot2	Thomas Lin Pedersen
see	Visualisation toolbox	easystats
ggimage	Add images to ggplots	Guangchuang YU
mathart	Create mathematical art	Marcus Volz

R development

Package	Description	By
usethis	Automate package and project setup tasks	Hadley Wickham, et al.
testthat	Framework for unit-testing functions	Hadley Wickham
xpectr	Generate testthat tests	Ludvig Olsen
checkmate	Fast input checks in functions	Michel Lang

Python Packages

Basic utilities

Package	Description	By
numpy	Numerical computing (arrays and math operations)	Travis Oliphant, et al.
pandas	Data frames	Wes McKinney, et al.
scipy	Scientific computing	Pauli Virtanen, et al.

Modeling

Package	Description	By
scikit-learn (sklearn)	Everything in machine learning	Pedregosa, F., et al.
tensorflow	Deep learning framework	Martín Abadi, et al.
pytorch	Deep learning framework	Adam Paszke, et al.
jax	High-performance machine learning research	James Bradbury, et al.
PyStan	Bayesian inference (stan interface)	PyStan
PyMC3	Bayesian statistical modeling and Probabilistic Machine Learning	Salvatier J., et al.

Neuro

Package	Description	By
mne	M/EEG analysis and visualization	Alexandre Gramfort, et al.
nipy	Neuroimaging tools	NiPy
nitime	Timeseries analysis for neuroscience data	NiPy
nilearn	scikit-learn for neuroimaging data	NiPy
nibabel	Read / write common neuroimaging file formats	NiPy
nilearn	Workflows and interfaces for neuroimaging packages	NiPy
PySurfer	Neuroimaging visualization	NiPy
PyMVPA	Multivariate pattern analysis	Michael Hanke, et al.
fMRIPrep	Robust Preprocessing Pipeline for fMRI Data	Oscar Esteban, et al.

NLP

Package	Description	By
nlpaug	Text and audio augmentation	Edward Ma