Package: OpEnHiMR 0.1.1

OpEnHiMR: Optimization Based Ensemble Model for Prediction of Histone Modifications in Rice

The comprehensive knowledge of epigenetic modifications in plants, encompassing histone modifications in regulating gene expression, is not completely ingrained. It is noteworthy that histone deacetylation and histone H3 lysine 27 trimethylation (H3K27me3) play a role in repressing transcription in eukaryotes. In contrast, histone acetylation (H3K9ac) and H3K4me3 have been inevitably linked to the stimulation of gene expression, which significantly influences plant development and plays a role in plant responses to biotic and abiotic stresses. To our knowledge this the first multiclass classifier for predicting histone modification in plants. <doi:10.1186/s12864-019-5489-4>.

Authors:Dipro Sinha [aut, cre], Sneha Murmu [aut], Girish Kumar Jha [aut], Md Yeasin [aut], Saikath Das [aut], Sougata Bhattacharjee [aut], Dwijesh Chandra Mishra [aut], Neeraj Budhlakoti [aut], Sudhir Srivastava [aut], Sunil Archak [aut]

OpEnHiMR_0.1.1.tar.gz
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OpEnHiMR_0.1.1.tgz(r-4.4-any)OpEnHiMR_0.1.1.tgz(r-4.3-any)
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OpEnHiMR_0.1.1.tgz(r-4.4-emscripten)OpEnHiMR_0.1.1.tgz(r-4.3-emscripten)
OpEnHiMR.pdf |OpEnHiMR.html✨
OpEnHiMR/json (API)

# Install 'OpEnHiMR' in R:

install.packages('OpEnHiMR', repos = c('https://diprosinha.r-universe.dev', 'https://cloud.r-project.org'))

On CRAN:

This package does not link to any Github/Gitlab/R-forge repository. No issue tracker or development information is available.

1.00 score 482 downloads 1 exports 213 dependencies

Last updated 5 months agofrom:4f31dd1ee2. Checks:OK: 7. Indexed: yes.

Target	Result	Date
Doc / Vignettes	OK	Oct 24 2024
R-4.5-win	OK	Oct 24 2024
R-4.5-linux	OK	Oct 24 2024
R-4.4-win	OK	Oct 24 2024
R-4.4-mac	OK	Oct 24 2024
R-4.3-win	OK	Oct 24 2024
R-4.3-mac	OK	Oct 24 2024

Exports:pred_hmc

Dependencies:ade4 askpass backports base64enc BiocGenerics Biostrings bit bit64 bitops blob brew brio broom bslib cachem callr caret cellranger class cli clipr clock codetools coin colorspace commonmark conflicted cpp11 crayon credentials curl data.table DBI dbplyr desc devtools diagram diffobj digest downlit dplyr dtplyr e1071 ellipsis entropy evaluate fansi farver fastmap fontawesome forcats foreach fs ftrCOOL future future.apply gargle gbm generics GenomeInfoDb GenomeInfoDbData gert ggplot2 gh gitcreds globals glue googledrive googlesheets4 gower gtable hardhat haven highr hms htmltools htmlwidgets httpuv httr httr2 ids ini ipred IRanges isoband iterators jquerylib jsonlite KernSmooth knitr labeling later lattice lava libcoin lifecycle listenv lubridate magrittr MASS Matrix matrixStats memoise mgcv mime miniUI ModelMetrics modelr modeltools multcomp munsell mvtnorm nlme nnet numDeriv openssl parallelly party pillar pixmap pkgbuild pkgconfig pkgdown pkgload plyr praise prettyunits pROC processx prodlim profvis progress progressr promises proxy ps purrr R6 ragg randomForest rappdirs rcmdcheck RColorBrewer Rcpp RcppArmadillo RCurl readr readxl recipes rematch rematch2 remotes reprex reshape2 rlang rmarkdown roxygen2 rpart rprojroot rstudioapi rversions rvest S4Vectors sandwich sass scales segmented selectr seqinr sessioninfo shape shiny sourcetools sp splitstackshape SQUAREM stringi stringr strucchange survival sys systemfonts testthat textshaping TH.data tibble tidyr tidyselect tidyverse timechange timeDate tinytex tzdb UCSC.utils urlchecker usethis utf8 uuid vctrs viridisLite vroom waldo whisker withr xfun xml2 xopen xtable XVector yaml zip zlibbioc zoo

Help page	Topics
Prediction of Histone Modification for Multiclass Data	pred_hmc

Package: OpEnHiMR 0.1.1

OpEnHiMR: Optimization Based Ensemble Model for Prediction of Histone Modifications in Rice

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