- recipe r-signac
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) <doi:10.1016/j.cell.2019.05.031>.
- Homepage:
- Documentation:
- License:
MIT / MIT
- Recipe:
- package r-signac¶
- versions:
1.14.0-0
,1.13.0-0
,1.12.0-0
,1.11.0-0
,1.10.0-2
,1.10.0-1
,1.10.0-0
,1.9.0-2
,1.9.0-1
,1.14.0-0
,1.13.0-0
,1.12.0-0
,1.11.0-0
,1.10.0-2
,1.10.0-1
,1.10.0-0
,1.9.0-2
,1.9.0-1
,1.9.0-0
,1.8.0-1
,1.8.0-0
,1.7.0-1
,1.7.0-0
,1.6.0-1
,1.6.0-0
,1.5.0-1
,1.5.0-0
,1.4.0-0
,1.3.0-0
,1.2.1-1
,1.2.1-0
,1.2.0-0
,1.1.1-1
,1.1.1-0
,1.1.0-0
- depends bioconductor-biocgenerics:
>=0.48.1,<0.49.0a0
- depends bioconductor-genomeinfodb:
>=1.29.3
- depends bioconductor-genomeinfodb:
>=1.38.1,<1.39.0a0
- depends bioconductor-genomicranges:
>=1.54.1,<1.55.0a0
- depends bioconductor-iranges:
>=2.36.0,<2.37.0a0
- depends bioconductor-rsamtools:
>=2.18.0,<2.19.0a0
- depends bioconductor-s4vectors:
>=0.40.2,<0.41.0a0
- depends libgcc-ng:
>=12
- depends libstdcxx-ng:
>=12
- depends r-base:
>=4.3,<4.4.0a0
- depends r-data.table:
- depends r-dplyr:
>=1.0.0
- depends r-fastmatch:
- depends r-future:
- depends r-future.apply:
- depends r-ggplot2:
- depends r-irlba:
- depends r-matrix:
- depends r-patchwork:
- depends r-pbapply:
- depends r-rcpp:
- depends r-rcpproll:
- depends r-rlang:
- depends r-scales:
- depends r-seuratobject:
>=5.0.2
- depends r-stringi:
- depends r-tidyr:
- depends r-tidyselect:
- depends r-vctrs:
- requirements:
- additional platforms:
Installation
You need a conda-compatible package manager (currently either micromamba, mamba, or conda) and the Bioconda channel already activated (see set-up-channels).
While any of above package managers is fine, it is currently recommended to use either micromamba or mamba (see here for installation instructions). We will show all commands using mamba below, but the arguments are the same for the two others.
Given that you already have a conda environment in which you want to have this package, install with:
mamba install r-signac and update with:: mamba update r-signac
To create a new environment, run:
mamba create --name myenvname r-signac
with
myenvname
being a reasonable name for the environment (see e.g. the mamba docs for details and further options).Alternatively, use the docker container:
docker pull quay.io/biocontainers/r-signac:<tag> (see `r-signac/tags`_ for valid values for ``<tag>``)
Download stats¶
Link to this page¶
Render an badge with the following MarkDown:
[![install with bioconda](https://img.shields.io/badge/install%20with-bioconda-brightgreen.svg?style=flat)](http://bioconda.github.io/recipes/r-signac/README.html)