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: https://bioc-release.r-universe.dev
Date/Publication: 2026-04-28 12:58:36 UTC
RemoteUrl: https://github.com/bioc/factR
RemoteRef: RELEASE_3_23
RemoteSha: 245db19a734be009db0f7015ada2a0579ff86628
NeedsCompilation: no
Packaged: 2026-04-29 21:17:23 UTC; root
Author: Fursham Hamid [aut, cre]
Maintainer: Fursham Hamid <fursham.h@gmail.com>
Built: R 4.6.0; ; 2026-04-29 21:24:44 UTC; windows
