R-universe search: topic:python

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prophet:Automatic Forecasting Procedure

Implements a procedure for forecasting time series data based on an additive model where non-linear trends are fit with yearly, weekly, and daily seasonality, plus holiday effects. It works best with time series that have strong seasonal effects and several seasons of historical data. Prophet is robust to missing data and shifts in the trend, and typically handles outliers well.

Maintained by Sean Taylor. Last updated 5 months ago.

forecasting python cpp

19k stars 15.59 score 976 scripts 13 dependents

rstudio

learnr:Interactive Tutorials for R

Create interactive tutorials using R Markdown. Use a combination of narrative, figures, videos, exercises, and quizzes to create self-paced tutorials for learning about R and R packages.

Maintained by Garrick Aden-Buie. Last updated 7 months ago.

interactive python rmarkdown shiny sql teaching tutorial

713 stars 14.79 score 6.5k scripts 27 dependents

neuhausi

canvasXpress:Visualization Package for CanvasXpress in R

Enables creation of visualizations using the CanvasXpress framework in R. CanvasXpress is a standalone JavaScript library for reproducible research with complete tracking of data and end-user modifications stored in a single PNG image that can be played back. See <https://www.canvasxpress.org> for more information.

Maintained by Connie Brett. Last updated 20 hours ago.

analytics bioinformatics chart charting dash dashboard data-analytics data-science data-visualization genomics graphs javascript network network-visualization python reproducible-research shiny visualization

297 stars 11.28 score 145 scripts

apache

apache.sedona:R Interface for Apache Sedona

R interface for 'Apache Sedona' based on 'sparklyr' (<https://sedona.apache.org>).

Maintained by Apache Sedona. Last updated 4 hours ago.

cluster-computing geospatial java python scala spatial-analysis spatial-query spatial-sql

2.0k stars 10.72 score 105 scripts

krassowski

ComplexUpset:Create Complex UpSet Plots Using 'ggplot2' Components

UpSet plots are an improvement over Venn Diagram for set overlap visualizations. Striving to bring the best of the 'UpSetR' and 'ggplot2', this package offers a way to create complex overlap visualisations, using simple and familiar tools, i.e. geoms of 'ggplot2'. For introduction to UpSet concept, see Lex et al. (2014) <doi:10.1109/TVCG.2014.2346248>.

Maintained by Michał Krassowski. Last updated 1 years ago.

ggplot ggplot2 patchwork python rstat upset upsetr venn venn-diagram visualization

491 stars 9.54 score 554 scripts 4 dependents

great-northern-diver

loon:Interactive Statistical Data Visualization

An extendable toolkit for interactive data visualization and exploration.

Maintained by R. Wayne Oldford. Last updated 2 years ago.

data-analysis data-science data-visualization exploratory-analysis exploratory-data-analysis high-dimensional-data interactive-graphics interactive-visualizations loon python statistical-analysis statistical-graphics statistics tcl-extension tk

48 stars 9.00 score 93 scripts 5 dependents

nredell

forecastML:Time Series Forecasting with Machine Learning Methods

The purpose of 'forecastML' is to simplify the process of multi-step-ahead forecasting with standard machine learning algorithms. 'forecastML' supports lagged, dynamic, static, and grouping features for modeling single and grouped numeric or factor/sequence time series. In addition, simple wrapper functions are used to support model-building with most R packages. This approach to forecasting is inspired by Bergmeir, Hyndman, and Koo's (2018) paper "A note on the validity of cross-validation for evaluating autoregressive time series prediction" <doi:10.1016/j.csda.2017.11.003>.

Maintained by Nickalus Redell. Last updated 5 years ago.

deep-learning direct-forecasting forecast forecasting machine-learning multi-step-ahead-forecasting neural-network python time-series

130 stars 7.64 score 134 scripts

risktoollib

RTL:Risk Tool Library - Trading, Risk, Analytics for Commodities

A toolkit for Commodities 'analytics', risk management and trading professionals. Includes functions for API calls to <https://commodities.morningstar.com/#/>, <https://developer.genscape.com/>, and <https://www.bankofcanada.ca/valet/docs>.

Maintained by Philippe Cote. Last updated 1 months ago.

analytics api commodities commodities-api finance genscape morningstar python risk-management cpp

30 stars 7.51 score 198 scripts

bioc

koinar:KoinaR - Remote machine learning inference using Koina

A client to simplify fetching predictions from the Koina web service. Koina is a model repository enabling the remote execution of models. Predictions are generated as a response to HTTP/S requests, the standard protocol used for nearly all web traffic.

Maintained by Ludwig Lautenbacher. Last updated 3 months ago.

massspectrometry proteomics infrastructure software bioinformatics deep-learning machine-learning mass-spectrometry python

34 stars 7.49 score 4 scripts

gagolews

genieclust:Fast and Robust Hierarchical Clustering with Noise Points Detection

A retake on the Genie algorithm (Gagolewski, 2021 <DOI:10.1016/j.softx.2021.100722>), which is a robust hierarchical clustering method (Gagolewski, Bartoszuk, Cena, 2016 <DOI:10.1016/j.ins.2016.05.003>). It is now faster and more memory efficient; determining the whole cluster hierarchy for datasets of 10M points in low dimensional Euclidean spaces or 100K points in high-dimensional ones takes only a minute or so. Allows clustering with respect to mutual reachability distances so that it can act as a noise point detector or a robustified version of 'HDBSCAN*' (that is able to detect a predefined number of clusters and hence it does not dependent on the somewhat fragile 'eps' parameter). The package also features an implementation of inequality indices (e.g., Gini and Bonferroni), external cluster validity measures (e.g., the normalised clustering accuracy, the adjusted Rand index, the Fowlkes-Mallows index, and normalised mutual information), and internal cluster validity indices (e.g., the Calinski-Harabasz, Davies-Bouldin, Ball-Hall, Silhouette, and generalised Dunn indices). See also the 'Python' version of 'genieclust' available on 'PyPI', which supports sparse data, more metrics, and even larger datasets.

Maintained by Marek Gagolewski. Last updated 9 days ago.

cluster-analysis clustering clustering-algorithm data-analysis data-mining data-science genie hdbscan hierarchical-clustering hierarchical-clustering-algorithm machine-learning machine-learning-algorithms mlpack nmslib python python3 sparse cpp openmp

61 stars 7.33 score 13 scripts 5 dependents

ddediu

AdhereR:Adherence to Medications

Computation of adherence to medications from Electronic Health care Data and visualization of individual medication histories and adherence patterns. The package implements a set of S3 classes and functions consistent with current adherence guidelines and definitions. It allows the computation of different measures of adherence (as defined in the literature, but also several original ones), their publication-quality plotting, the estimation of event duration and time to initiation, the interactive exploration of patient medication history and the real-time estimation of adherence given various parameter settings. It scales from very small datasets stored in flat CSV files to very large databases and from single-thread processing on mid-range consumer laptops to parallel processing on large heterogeneous computing clusters. It exposes a standardized interface allowing it to be used from other programming languages and platforms, such as Python.

Maintained by Dan Dediu. Last updated 1 years ago.

adherence-to-medications electronic-healthcare-data hadoop medical-databases medication-histories python sql visualisation

28 stars 7.07 score 47 scripts 1 dependents

mlverse

mall:Run Multiple Large Language Model Predictions Against a Table, or Vectors

Run multiple 'Large Language Model' predictions against a table. The predictions run row-wise over a specified column. It works using a one-shot prompt, along with the current row's content. The prompt that is used will depend of the type of analysis needed.

Maintained by Edgar Ruiz. Last updated 4 months ago.

data-science dplyr llm polars python

86 stars 6.61 score 94 scripts

daroczig

botor:'AWS Python SDK' ('boto3') for R

Fork-safe, raw access to the 'Amazon Web Services' ('AWS') 'SDK' via the 'boto3' 'Python' module, and convenient helper functions to query the 'Simple Storage Service' ('S3') and 'Key Management Service' ('KMS'), partial support for 'IAM', the 'Systems Manager Parameter Store' and 'Secrets Manager'.

Maintained by Gergely Daróczi. Last updated 2 months ago.

amazon-web-services aws boto3 python

30 stars 6.60 score 32 scripts

ygeunkim

bvhar:Bayesian Vector Heterogeneous Autoregressive Modeling

Tools to model and forecast multivariate time series including Bayesian Vector heterogeneous autoregressive (VHAR) model by Kim & Baek (2023) (<doi:10.1080/00949655.2023.2281644>). 'bvhar' can model Vector Autoregressive (VAR), VHAR, Bayesian VAR (BVAR), and Bayesian VHAR (BVHAR) models.

Maintained by Young Geun Kim. Last updated 29 days ago.

bayesian bayesian-econometrics bvar eigen forecasting har pybind11 python rcppeigen time-series vector-autoregression cpp openmp

6 stars 6.42 score 25 scripts

terrytangyuan

scaffolder:Scaffolding Interfaces to Packages in Other Programming Languages

Comprehensive set of tools for scaffolding R interfaces to modules, classes, functions, and documentations written in other programming languages, such as 'Python'.

Maintained by Yuan Tang. Last updated 2 years ago.

code-generation python reticulate scaffolding

27 stars 6.13 score 9 scripts

brownag

rgeedim:Search, Composite, and Download 'Google Earth Engine' Imagery with the 'Python' Module 'geedim'

Search, composite, and download 'Google Earth Engine' imagery with 'reticulate' bindings for the 'Python' module 'geedim' by Dugal Harris. Read the 'geedim' documentation here: <https://geedim.readthedocs.io/>. Wrapper functions are provided to make it more convenient to use 'geedim' to download images larger than the 'Google Earth Engine' size limit <https://developers.google.com/earth-engine/apidocs/ee-image-getdownloadurl>. By default the "High Volume" API endpoint <https://developers.google.com/earth-engine/cloud/highvolume> is used to download data and this URL can be customized during initialization of the package.

Maintained by Andrew Brown. Last updated 7 days ago.

geedim geotiff gis google-earth-engine python raster remote-sensing satellite-imagery spatial terra

50 stars 6.13 score 27 scripts

mlampros

fuzzywuzzyR:Fuzzy String Matching

Fuzzy string matching implementation of the 'fuzzywuzzy' <https://github.com/seatgeek/fuzzywuzzy> 'python' package. It uses the Levenshtein Distance <https://en.wikipedia.org/wiki/Levenshtein_distance> to calculate the differences between sequences.

Maintained by Lampros Mouselimis. Last updated 2 years ago.

fuzzywuzzy matching python reticulate string

37 stars 5.87 score 40 scripts

cu-dbmi-peds

phoenix:The Phoenix Pediatric Sepsis and Septic Shock Criteria

Implementation of the Phoenix and Phoenix-8 Sepsis Criteria as described in "Development and Validation of the Phoenix Criteria for Pediatric Sepsis and Septic Shock" by Sanchez-Pinto, Bennett, DeWitt, Russell et al. (2024) <doi:10.1001/jama.2024.0196> (Drs. Sanchez-Pinto and Bennett contributed equally to this manuscript; Dr. DeWitt and Mr. Russell contributed equally to the manuscript), "International Consensus Criteria for Pediatric Sepsis and Septic Shock" by Schlapbach, Watson, Sorce, Argent, et al. (2024) <doi:10.1001/jama.2024.0179> (Drs Schlapbach, Watson, Sorce, and Argent contributed equally) and the application note "phoenix: an R package and Python module for calculating the Phoenix pediatric sepsis score and criteria" by DeWitt, Russell, Rebull, Sanchez-Pinto, and Bennett (2024) <doi:10.1093/jamiaopen/ooae066>.

Maintained by Peter DeWitt. Last updated 26 days ago.

pediatric phoenix python sepsis septic-shock sql

3 stars 5.78 score 20 scripts

rformassspectrometry

SpectriPy:Integrating Spectra with Python's matchms

The SpectriPy package allows integration of Python-based MS analysis code with the Spectra package. Spectra objects can be converted into Python's matchms Spectrum objects. In addition, SpectriPy integrates and wraps the similarity scoring and processing/filtering functions from the matchms package into R.

Maintained by Johannes Rainer. Last updated 2 months ago.

infrastructure metabolomics massspectrometry mass-spectrometry python

8 stars 5.25 score 5 scripts

lydialucchesi

smallsets:Visual Documentation for Data Preprocessing

Data practitioners regularly use the 'R' and 'Python' programming languages to prepare data for analyses. Thus, they encode important data preprocessing decisions in 'R' and 'Python' code. The 'smallsets' package subsequently decodes these decisions into a Smallset Timeline, a static, compact visualisation of data preprocessing decisions (Lucchesi et al. (2022) <doi:10.1145/3531146.3533175>). The visualisation consists of small data snapshots of different preprocessing steps. The 'smallsets' package builds this visualisation from a user's dataset and preprocessing code located in an 'R', 'R Markdown', 'Python', or 'Jupyter Notebook' file. Users simply add structured comments with snapshot instructions to the preprocessing code. One optional feature in 'smallsets' requires installation of the 'Gurobi' optimisation software and 'gurobi' 'R' package, available from <https://www.gurobi.com>. More information regarding the optional feature and 'gurobi' installation can be found in the 'smallsets' vignette.

Maintained by Lydia R. Lucchesi. Last updated 2 months ago.

data-science data-visualization documentation-tool machine-learning preprocessing python visualization-tools

14 stars 5.19 score 11 scripts

mlampros

nmslibR:Non Metric Space (Approximate) Library

A Non-Metric Space Library ('NMSLIB' <https://github.com/nmslib/nmslib>) wrapper, which according to the authors "is an efficient cross-platform similarity search library and a toolkit for evaluation of similarity search methods. The goal of the 'NMSLIB' <https://github.com/nmslib/nmslib> Library is to create an effective and comprehensive toolkit for searching in generic non-metric spaces. Being comprehensive is important, because no single method is likely to be sufficient in all cases. Also note that exact solutions are hardly efficient in high dimensions and/or non-metric spaces. Hence, the main focus is on approximate methods". The wrapper also includes Approximate Kernel k-Nearest-Neighbor functions based on the 'NMSLIB' <https://github.com/nmslib/nmslib> 'Python' Library.

Maintained by Lampros Mouselimis. Last updated 2 years ago.

approximate-nearest-neighbor-search nmslib non-metric python reticulate cpp openmp

12 stars 5.14 score 23 scripts

henrikbengtsson

port4me:Get the Same, Personal, Free 'TCP' Port over and over

An R implementation of the cross-platform, language-independent "port4me" algorithm (<https://github.com/HenrikBengtsson/port4me>), which (1) finds a free Transmission Control Protocol ('TCP') port in [1024,65535] that the user can open, (2) is designed to work in multi-user environments, (3), gives different users, different ports, (4) gives the user the same port over time with high probability, (5) gives different ports for different software tools, and (6) requires no configuration.

Maintained by Henrik Bengtsson. Last updated 1 years ago.

bash cli high-performance-computing hpc multi-tenant multi-user port pypi-package python r-language r-programming tcp utility

12 stars 5.08 score 5 scripts

stencila

stencilaschema:Bindings for Stencila Schema

Provides R bindings for the Stencila Schema <https://schema.stenci.la>. This package is primarily aimed at R developers wanting to programmatically generate, or modify, executable documents.

Maintained by Nokome Bentley. Last updated 3 years ago.

json-schema python rust schema-org semantic typescript vocabulary

17 stars 4.93 score 2 scripts

bioc

spatialDE:R wrapper for SpatialDE

SpatialDE is a method to find spatially variable genes (SVG) from spatial transcriptomics data. This package provides wrappers to use the Python SpatialDE library in R, using reticulate and basilisk.

Maintained by Gabriele Sales. Last updated 5 months ago.

software transcriptomics python spatial-data wrapper

3 stars 4.76 score 16 scripts

ddediu

AdhereRViz:Adherence to Medications

Interactive graphical user interface (GUI) for the package 'AdhereR', allowing the user to access different data sources, to explore the patterns of medication use therein, and the computation of various measures of adherence. It is implemented using Shiny and HTML/CSS/JavaScript.

Maintained by Dan Dediu. Last updated 1 years ago.

adherence-to-medications electronic-healthcare-data hadoop medical-databases medication-histories python sql visualisation

28 stars 4.75 score 2 scripts

dipterix

rpyANTs:An Alternative Advanced Normalization Tools ('ANTs')

Provides portable access from 'R' to biomedical image processing toolbox 'ANTs' by Avants et al. (2009) <doi:10.54294/uvnhin> via seamless integration with the 'Python' implementation 'ANTsPy'. Allows biomedical images to be processed in 'Python' and analyzed in 'R', and vice versa via shared memory. See 'citation("rpyANTs")' for more reference information.

Maintained by Zhengjia Wang. Last updated 2 days ago.

ants brain ieeg mri neuroimaging normalization python registration

1 stars 4.48 score 8 scripts 2 dependents

akai01

ngboostForecast:Probabilistic Time Series Forecasting

Probabilistic time series forecasting via Natural Gradient Boosting for Probabilistic Prediction.

Maintained by Resul Akay. Last updated 3 years ago.

forecasting machine-learning ngboost ngboost-forecast probabilistic-forecasts python sklearn time-series

7 stars 3.69 score 14 scripts

ncss-tech

rosettaPTF:R Frontend for Rosetta Pedotransfer Functions

Access Python rosetta-soil pedotransfer functions in an R environment. Rosetta is a neural network-based model for predicting unsaturated soil hydraulic parameters from basic soil characterization data. The model predicts parameters for the van Genuchten unsaturated soil hydraulic properties model, using sand, silt, and clay, bulk density and water content. The codebase is now maintained by Dr. Todd Skaggs and other U.S. Department of Agriculture employees. This R package is intended to provide for use cases that involve many thousands of calls to the pedotransfer function. Less demanding use cases are encouraged to use the web interface or API endpoint. There are additional wrappers of the API endpoints provided by the soilDB R package `ROSETTA()` method.

Maintained by Andrew G. Brown. Last updated 3 months ago.

hydraulic hydrology ksat pedotransfer python reticulate rosetta soil

8 stars 2.90 score 8 scripts