R-universe search: topic:hdf5

Showing 10 of total 10 results (show query)

bioc

rhdf5:R Interface to HDF5

This package provides an interface between HDF5 and R. HDF5's main features are the ability to store and access very large and/or complex datasets and a wide variety of metadata on mass storage (disk) through a completely portable file format. The rhdf5 package is thus suited for the exchange of large and/or complex datasets between R and other software package, and for letting R applications work on datasets that are larger than the available RAM.

Maintained by Mike Smith. Last updated 5 days ago.

infrastructure dataimport hdf5 rhdf5 openssl curl zlib cpp

62 stars 15.87 score 4.2k scripts 232 dependents

hhoeflin

hdf5r:Interface to the 'HDF5' Binary Data Format

'HDF5' is a data model, library and file format for storing and managing large amounts of data. This package provides a nearly feature complete, object oriented wrapper for the 'HDF5' API <https://support.hdfgroup.org/documentation/hdf5/latest/_r_m.html> using R6 classes. Additionally, functionality is added so that 'HDF5' objects behave very similar to their corresponding R counterparts.

Maintained by Holger Hoefling. Last updated 2 months ago.

hdf5

82 stars 12.09 score 988 scripts 34 dependents

bioc

Rhdf5lib:hdf5 library as an R package

Provides C and C++ hdf5 libraries.

Maintained by Mike Smith. Last updated 6 days ago.

infrastructure bioconductor hdf5 hdf5-library fortran zlib

6 stars 11.22 score 26 scripts 341 dependents

bioc

rhdf5filters:HDF5 Compression Filters

Provides a collection of additional compression filters for HDF5 datasets. The package is intended to provide seemless integration with rhdf5, however the compiled filters can also be used with external applications.

Maintained by Mike Smith. Last updated 5 days ago.

infrastructure dataimport compression filter-plugin hdf5

5 stars 9.90 score 4 scripts 233 dependents

rte-antares-rpackage

antaresRead:Import, Manipulate and Explore the Results of an 'Antares' Simulation

Import, manipulate and explore results generated by 'Antares', a powerful open source software developed by RTE (Réseau de Transport d’Électricité) to simulate and study electric power systems (more information about 'Antares' here : <https://antares-simulator.org/>).

Maintained by Tatiana Vargas. Last updated 3 days ago.

infrastructure dataimport adequacy bilan electricity energy hdf5 linear-algebra monte-carlo-simulation optimisation previsionnel rhdf5 rte simulation tyndp

13 stars 9.32 score 148 scripts 3 dependents

bnprks

BPCells:Single Cell Counts Matrices to PCA

> Efficient operations for single cell ATAC-seq fragments and RNA counts matrices. Interoperable with standard file formats, and introduces efficient bit-packed formats that allow large storage savings and increased read speeds.

Maintained by Benjamin Parks. Last updated 2 months ago.

zlib hdf5 cpp

184 stars 7.48 score 172 scripts

bioc

CuratedAtlasQueryR:Queries the Human Cell Atlas

Provides access to a copy of the Human Cell Atlas, but with harmonised metadata. This allows for uniform querying across numerous datasets within the Atlas using common fields such as cell type, tissue type, and patient ethnicity. Usage involves first querying the metadata table for cells of interest, and then downloading the corresponding cells into a SingleCellExperiment object.

Maintained by Stefano Mangiola. Last updated 5 months ago.

assaydomain infrastructure rnaseq differentialexpression geneexpression normalization clustering qualitycontrol sequencing transcription transcriptomics database duckdb hdf5 human-cell-atlas single-cell singlecellexperiment tidyverse

90 stars 7.04 score 41 scripts

adokter

vol2birdR:Vertical Profiles of Biological Signals in Weather Radar Data

'R' implementation of the 'vol2bird' software for generating vertical profiles of birds and other biological signals in weather radar data. See Dokter et al. (2011) <doi:10.1098/rsif.2010.0116> for a paper describing the methodology.

Maintained by Adriaan M. Dokter. Last updated 1 days ago.

proj hdf5 zlib gsl cpp

6 stars 6.58 score 19 scripts

welch-lab

RcppPlanc:Parallel Low-Rank Approximation with Nonnegativity Constraints

'Rcpp' bindings for 'PLANC', a highly parallel and extensible NMF/NTF (Non-negative Matrix/Tensor Factorization) library. Wraps algorithms described in Kannan et. al (2018) <doi:10.1109/TKDE.2017.2767592> and Eswar et. al (2021) <doi:10.1145/3432185>. Implements algorithms described in Welch et al. (2019) <doi:10.1016/j.cell.2019.05.006>, Gao et al. (2021) <doi:10.1038/s41587-021-00867-x>, and Kriebel & Welch (2022) <doi:10.1038/s41467-022-28431-4>.

Maintained by Andrew Robbins. Last updated 3 months ago.

openblas hdf5 hwloc cpp

4 stars 4.45 score 7 scripts

caiohamamura

rGEDIsimulator:NASA's Global Ecosystem Dynamics Investigation (GEDI) Simulator for ALS Data

Simulates the fullwaveform GEDI data and calculates metrics based on aerial lidar systems data.

Maintained by Caio Hamamura. Last updated 11 months ago.

hdf5 gsl gdal

7 stars 3.02 score 2 scripts