Package: geneSLOPE 0.38.1

geneSLOPE: Genome-Wide Association Study with SLOPE

Genome-wide association study (GWAS) performed with SLOPE, short for Sorted L-One Penalized Estimation, a method for estimating the vector of coefficients in linear model. In the first step of GWAS, SNPs are clumped according to their correlations and distances. Then, SLOPE is performed on data where each clump has one representative.

Authors:Damian Brzyski [aut], Christine Peterson [aut], Emmanuel J. Candes [aut], Malgorzata Bogdan [aut], Chiara Sabatti [aut], Piotr Sobczyk [cre, aut]

geneSLOPE_0.38.1.tar.gz
geneSLOPE_0.38.1.zip(r-4.5)geneSLOPE_0.38.1.zip(r-4.4)geneSLOPE_0.38.1.zip(r-4.3)
geneSLOPE_0.38.1.tgz(r-4.4-any)geneSLOPE_0.38.1.tgz(r-4.3-any)
geneSLOPE_0.38.1.tar.gz(r-4.5-noble)geneSLOPE_0.38.1.tar.gz(r-4.4-noble)
geneSLOPE_0.38.1.tgz(r-4.4-emscripten)geneSLOPE_0.38.1.tgz(r-4.3-emscripten)
geneSLOPE.pdf |geneSLOPE.html✨
geneSLOPE/json (API)

# Install 'geneSLOPE' in R:
install.packages('geneSLOPE', repos = c('https://psobczyk.r-universe.dev', 'https://cloud.r-project.org'))

Peer review:

Bug tracker:https://github.com/psobczyk/geneslope/issues

On CRAN:

4.18 score 3 stars 7 scripts 202 downloads 6 exports 38 dependencies

Last updated 3 years agofrom:1c323d5abe. Checks:OK: 1 NOTE: 6. Indexed: yes.

TargetResultDate
Doc / VignettesOKNov 09 2024
R-4.5-winNOTENov 09 2024
R-4.5-linuxNOTENov 09 2024
R-4.4-winNOTENov 09 2024
R-4.4-macNOTENov 09 2024
R-4.3-winNOTENov 09 2024
R-4.3-macNOTENov 09 2024

Exports:clump_snpsgui_geneSLOPEidentify_clumpread_phenotypescreen_snpsselect_snps

Dependencies:BHbigmemorybigmemory.sriclicodetoolscolorspacefansifarverforeachggplot2gluegtableisobanditeratorslabelinglatticelifecyclemagrittrMASSMatrixmgcvmunsellnlmepillarpkgconfigR6RColorBrewerRcppRcppArmadillorlangscalesSLOPEtibbleutf8uuidvctrsviridisLitewithr

Tutorial for GWAS with SLOPE

Piotr Sobczyk

Rendered fromGWASwithSLOPE.Rmdusingknitr::rmarkdownon Nov 09 2024.

Last update: 2021-11-10
Started: 2015-10-28