Analysis of Single-Cell Chromatin Data

A framework for the analysis and exploration of single-cell chromatin data. The 'Signac' package contains functions for quantifying single-cell chromatin data, computing per-cell quality control metrics, dimension reduction and normalization, visualization, and DNA sequence motif analysis. Reference: Stuart and Butler et al. (2019) .

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install.packages("Signac")

1.0.0 by Tim Stuart, a month ago

https://github.com/timoast/signac, https://satijalab.org/signac

Report a bug at https://github.com/timoast/signac/issues

Browse source code at https://github.com/cran/Signac

Authors: Tim Stuart [aut, cre] , Avi Srivastava [aut] , Paul Hoffman [ctb] , Rahul Satija [ctb]

Documentation: PDF Manual

MIT + file LICENSE license

Imports GenomeInfoDb, GenomicRanges, IRanges, Matrix, Rsamtools, S4Vectors, Seurat, data.table, dplyr, future, future.apply, ggplot2, ggseqlogo, irlba, pbapply, tidyr, patchwork, grid, stats, utils, Biobase, BiocGenerics, Biostrings, ggrepel, stringi, ggbio, biovizBase, AnnotationFilter, fastmatch, lsa, RcppRoll, scales, Rcpp, qvalue

Depends on methods

Suggests testthat, chromVAR, SummarizedExperiment, TFBSTools, motifmatchr, BSgenome, shiny, miniUI

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