methylTFRAnnotationHg38: Pre-computed annotations to compute TF deviation scores on the hg38 genome.

Precomputed annotation resources for the methylTFR R package, which computes transcription factor methylation deviation scores from single-cell or bulk methylation data. This record holds the human (hg38) resources; the mouse (mm10) counterpart is deposited separately.Eight files are included, covering four motif sets (ALTIUS, CIS-BP v2, JASPAR2020,and a distal-restricted JASPAR2020 set) plus one genome-wide file: - `<motifset>_tf_bindsites.rds` — genome-wide motif matches, one GRanges per motif, stored as a GRangesList. Each match is extended by 200 bp on either side so that methylTFR can read methylation calls across the footprint window.- `<motifset>_motif_gcfreq.rds` — a list with one five-row matrix per motif, giving how many of that motif's binding sites fall in each genome-wide GC quintile. These tables are what allow a deviation score to be corrected for sequence composition.- `genomewide_GC_hg38.rds` — a GRanges of tiled windows carrying GC_bias and a GC_bin assignment into genome-wide quintiles, used to assign each methylation call to a GC bin.All files are R-serialized objects (.rds) created with GenomicRanges. They aredistributed through Bioconductor's AnnotationHub and are downloaded and cached onfirst use by the methylTFRAnnotationHg38 package; they can also be read directlywith readRDS(). Motifs and reference sequences come from the following sources: - ALTIUS: Vierstra motif archetypes v1.0, https://resources.altius.org/~jvierstra/projects/motif-clustering/releases/v1.0/- CIS-BP: CIS-BP v2, obtained through the chromVARmotifs pwms_v2 collection, https://github.com/GreenleafLab/chromVARmotifs- JASPAR: JASPAR2020 CORE, https://jaspar.elixir.no/- Reference genome: UCSC hg38, via BSgenome.Hsapiens.UCSC.hg38The code used to generate these files is in inst/scripts/make-data.R of themethylTFRAnnotationHg38 package:https://github.com/EpigenomeInformatics/methylTFRAnnotationHg38