Package: factR Title: Functional Annotation of Custom Transcriptomes Version: 1.15.0 Authors@R: person("Fursham", "Hamid", email = "fursham.h@gmail.com", role = c("aut", "cre")) Description: factR contain tools to process and interact with custom-assembled transcriptomes (GTF). At its core, factR constructs CDS information on custom transcripts and subsequently predicts its functional output. In addition, factR has tools capable of plotting transcripts, correcting chromosome and gene information and shortlisting new transcripts. Depends: R (>= 4.2) biocViews: AlternativeSplicing, FunctionalPrediction, GenePrediction Imports: BiocGenerics (>= 0.46), Biostrings (>= 2.68), GenomeInfoDb (>= 1.36), dplyr (>= 1.1), GenomicFeatures (>= 1.52), GenomicRanges (>= 1.52), IRanges (>= 2.34), purrr (>= 1.0), rtracklayer (>= 1.60), tidyr (>= 1.3), methods (>= 4.3), BiocParallel (>= 1.34), S4Vectors (>= 0.38), data.table (>= 1.14), rlang (>= 1.1), tibble (>= 3.2), wiggleplotr (>= 1.24), RCurl (>= 1.98), XML (>= 3.99), drawProteins (>= 1.20), ggplot2 (>= 3.4), stringr (>= 1.5), pbapply (>= 1.7), stats (>= 4.3), utils (>= 4.3), graphics (>= 4.3), crayon (>= 1.5) License: file LICENSE Encoding: UTF-8 ByteCompile: true RoxygenNote: 7.2.1 Suggests: AnnotationHub (>= 2.22), BSgenome (>= 1.58), BSgenome.Mmusculus.UCSC.mm10, testthat, knitr, rmarkdown, markdown, zeallot, rmdformats, bio3d (>= 2.4), signalHsmm (>= 1.5), tidyverse (>= 1.3), covr, patchwork VignetteBuilder: knitr LazyData: FALSE BiocType: Software URL: https://fursham-h.github.io/factR/ Config/pak/sysreqs: make libbz2-dev libicu-dev liblzma-dev libpng-dev libxml2-dev libssl-dev libx11-dev xz-utils zlib1g-dev Repository: https://bioc.r-universe.dev Date/Publication: 2026-04-28 12:58:36 UTC RemoteUrl: https://github.com/bioc/factR RemoteRef: HEAD RemoteSha: 4d6b2caa91e8dc47ddc91a12aefd951162e5d189 NeedsCompilation: no Packaged: 2026-05-30 08:35:00 UTC; root Author: Fursham Hamid [aut, cre] Maintainer: Fursham Hamid