Showing 9 of total 9 results (show query)
qsbase
qs:Quick Serialization of R Objects
Provides functions for quickly writing and reading any R object to and from disk.
Maintained by Travers Ching. Last updated 10 days ago.
compressiondata-storageencodingserializationlibzstdlz4cpp
9.6 match 414 stars 13.91 score 2.5k scripts 51 dependents
coolbutuseless
zstdlite:Fast Compression and Serialization with 'Zstandard' Algorithm
Fast, compressed serialization of R objects using the 'Zstandard' algorithm. The included zstandard connection ('zstdfile()') can be used to read/write compressed data by any code which supports R's built-in 'connections' mechanism. Dictionaries are supported for more effective compression of small data, and functions are provided for training these dictionaries. This implementation provides an R interface to advanced features of the 'Zstandard' 'C' library (available from <https://github.com/facebook/zstd>).
Maintained by Mike Cheng. Last updated 2 months ago.
18.9 match 30 stars 4.95 score 7 scriptsqsbase
qs2:Efficient Serialization of R Objects
Streamlines and accelerates the process of saving and loading R objects, improving speed and compression compared to other methods. The package provides two compression formats: the 'qs2' format, which uses R serialization via the C API while optimizing compression and disk I/O, and the 'qdata' format, featuring custom serialization for slightly faster performance and better compression. Additionally, the 'qs2' format can be directly converted to the standard 'RDS' format, ensuring long-term compatibility with future versions of R.
Maintained by Travers Ching. Last updated 10 days ago.
compressiondata-storageserializationcpp
9.6 match 15 stars 7.57 score 25 scripts 2 dependents
fstpackage
fst:Lightning Fast Serialization of Data Frames
Multithreaded serialization of compressed data frames using the 'fst' format. The 'fst' format allows for full random access of stored data and a wide range of compression settings using the LZ4 and ZSTD compressors.
Maintained by Mark Klik. Last updated 6 months ago.
compressiondata-framedata-storagecpp
2.2 match 624 stars 13.14 score 1.9k scripts 55 dependents
hanchenphd
GMMAT:Generalized Linear Mixed Model Association Tests
Perform association tests using generalized linear mixed models (GLMMs) in genome-wide association studies (GWAS) and sequencing association studies. First, GMMAT fits a GLMM with covariate adjustment and random effects to account for population structure and familial or cryptic relatedness. For GWAS, GMMAT performs score tests for each genetic variant as proposed in Chen et al. (2016) <DOI:10.1016/j.ajhg.2016.02.012>. For candidate gene studies, GMMAT can also perform Wald tests to get the effect size estimate for each genetic variant. For rare variant analysis from sequencing association studies, GMMAT performs the variant Set Mixed Model Association Tests (SMMAT) as proposed in Chen et al. (2019) <DOI:10.1016/j.ajhg.2018.12.012>, including the burden test, the sequence kernel association test (SKAT), SKAT-O and an efficient hybrid test of the burden test and SKAT, based on user-defined variant sets.
Maintained by Han Chen. Last updated 1 years ago.
openblaszlibbzip2libzstdlibdeflatecpp
2.3 match 38 stars 8.34 score 96 scripts 2 dependents
marcusklik
fstcore:R Bindings to the 'Fstlib' Library
The 'fstlib' library provides multithreaded serialization of compressed data frames using the 'fst' format. The 'fst' format allows for random access of stored data and compression with the 'LZ4' and 'ZSTD' compressors.
Maintained by Mark Klik. Last updated 1 months ago.
3.6 match 5.13 score 6 scripts 56 dependents
chrchang
pgenlibr:PLINK 2 Binary (.pgen) Reader
A thin wrapper over PLINK 2's core libraries which provides an R interface for reading .pgen files. A minimal .pvar loader is also included. Chang et al. (2015) \doi{10.1186/s13742-015-0047-8}.
Maintained by Christopher Chang. Last updated 2 months ago.
4.7 match 2.98 score 64 scripts
jwiley
JWileymisc:Miscellaneous Utilities and Functions
Miscellaneous tools and functions, including: generate descriptive statistics tables, format output, visualize relations among variables or check distributions, and generic functions for residual and model diagnostics.
Maintained by Joshua F. Wiley. Last updated 2 months ago.
1.7 match 6 stars 7.42 score 241 scripts 4 dependentshanchenphd
MAGEE:Mixed Model Association Test for GEne-Environment Interaction
Use a 'glmmkin' class object (GMMAT package) from the null model to perform generalized linear mixed model-based single-variant and variant set main effect tests, gene-environment interaction tests, and joint tests for association, as proposed in Wang et al. (2020) <DOI:10.1002/gepi.22351>.
Maintained by Han Chen. Last updated 8 months ago.
2.3 match 4.95 score 9 scripts