The BioGA package provides a set of functions for genetic algorithm optimization tailored for analyzing high throughput genomic data. These functions are implemented in C++ for improved speed and efficiency, with an easy-to-use interface for use within R.
Installation
You can install the package directly from GitHub using the devtools package:
devtools::install_github("danymukesha/BioGA")
#> Downloading GitHub repo danymukesha/BioGA@HEAD
#> fs (1.6.3 -> 1.6.4 ) [CRAN]
#> fastmap (1.1.1 -> 1.2.0 ) [CRAN]
#> cachem (1.0.8 -> 1.1.0 ) [CRAN]
#> xfun (0.42 -> 0.44 ) [CRAN]
#> tinytex (0.50 -> 0.51 ) [CRAN]
#> knitr (1.45 -> 1.46 ) [CRAN]
#> htmltools (0.5.7 -> 0.5.8.1) [CRAN]
#> bslib (0.6.1 -> 0.7.0 ) [CRAN]
#> rmarkdown (2.26 -> 2.27 ) [CRAN]
#> matrixStats (1.2.0 -> 1.3.0 ) [CRAN]
#> munsell (0.5.0 -> 0.5.1 ) [CRAN]
#> farver (2.1.1 -> 2.1.2 ) [CRAN]
#> BiocManager (1.30.22 -> 1.30.23) [CRAN]
#> bookdown (0.38 -> 0.39 ) [CRAN]
#> gtable (0.3.4 -> 0.3.5 ) [CRAN]
#> ggplot2 (3.5.0 -> 3.5.1 ) [CRAN]
#> Skipping 17 packages ahead of CRAN: BiocGenerics, graph, S4Arrays, IRanges, S4Vectors, MatrixGenerics, GenomeInfoDbData, zlibbioc, XVector, GenomeInfoDb, RBGL, Biobase, DelayedArray, GenomicRanges, BiocStyle, biocViews, SummarizedExperiment
#> Installing 16 packages: fs, fastmap, cachem, xfun, tinytex, knitr, htmltools, bslib, rmarkdown, matrixStats, munsell, farver, BiocManager, bookdown, gtable, ggplot2
#> Installing packages into 'C:/Users/dany.mukesha/AppData/Local/Temp/Rtmp63bptc/temp_libpath848868d23488'
#> (as 'lib' is unspecified)
#> Warning: unable to access index for repository https://bioconductor.org/packages/3.17/data/annotation/bin/windows/contrib/4.3:
#> cannot open URL 'https://bioconductor.org/packages/3.17/data/annotation/bin/windows/contrib/4.3/PACKAGES'
#> Warning: unable to access index for repository https://bioconductor.org/packages/3.17/data/experiment/bin/windows/contrib/4.3:
#> cannot open URL 'https://bioconductor.org/packages/3.17/data/experiment/bin/windows/contrib/4.3/PACKAGES'
#> Warning: unable to access index for repository https://bioconductor.org/packages/3.17/workflows/bin/windows/contrib/4.3:
#> cannot open URL 'https://bioconductor.org/packages/3.17/workflows/bin/windows/contrib/4.3/PACKAGES'
#> package 'fs' successfully unpacked and MD5 sums checked
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#> package 'munsell' successfully unpacked and MD5 sums checked
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#> package 'bookdown' successfully unpacked and MD5 sums checked
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#>
#> The downloaded binary packages are in
#> C:\Users\dany.mukesha\AppData\Local\Temp\RtmpArcJMj\downloaded_packages
#> ── R CMD build ─────────────────────────────────────────────────────────────────
#> checking for file 'C:\Users\dany.mukesha\AppData\Local\Temp\RtmpArcJMj\remotes15e82c92423\danymukesha-BioGA-23ecb91/DESCRIPTION' ... ✔ checking for file 'C:\Users\dany.mukesha\AppData\Local\Temp\RtmpArcJMj\remotes15e82c92423\danymukesha-BioGA-23ecb91/DESCRIPTION' (343ms)
#> ─ preparing 'BioGA':
#> checking DESCRIPTION meta-information ... checking DESCRIPTION meta-information ... ✔ checking DESCRIPTION meta-information
#> ─ cleaning src
#> ─ checking for LF line-endings in source and make files and shell scripts
#> ─ checking for empty or unneeded directories
#> Omitted 'LazyData' from DESCRIPTION
#> ─ building 'BioGA_0.99.5.tar.gz'
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#> Installing package into 'C:/Users/dany.mukesha/AppData/Local/Temp/Rtmp63bptc/temp_libpath848868d23488'
#> (as 'lib' is unspecified)