Package: factR Title: Functional Annotation of Custom Transcriptomes Version: 1.14.0 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: Bioconductor 3.23 Date/Publication: 2026-04-28 12:58:36 UTC RemoteUrl: https://github.com/bioc/factR RemoteRef: RELEASE_3_23 RemoteSha: 245db19a734be009db0f7015ada2a0579ff86628 NeedsCompilation: no Packaged: 2026-09-16 07:58:54 UTC; root Author: Fursham Hamid [aut, cre] Maintainer: Fursham Hamid