recipe bioconductor-dropletutils

Utilities for Handling Single-Cell Droplet Data

Homepage:

https://bioconductor.org/packages/3.14/bioc/html/DropletUtils.html

License:

GPL-3

Recipe:

/bioconductor-dropletutils/meta.yaml

Links:

biotools: DropletUtils

Provides a number of utility functions for handling single-cell (RNA-seq) data from droplet technologies such as 10X Genomics. This includes data loading from count matrices or molecule information files, identification of cells from empty droplets, removal of barcode-swapped pseudo-cells, and downsampling of the count matrix.

package bioconductor-dropletutils

Versions:

1.14.2-1,  1.14.2-0,  1.14.0-0,  1.12.1-0,  1.12.0-0,  1.10.3-0,  1.10.0-0,  1.8.0-0,  1.6.1-0, 

1.14.2-1,  1.14.2-0,  1.14.0-0,  1.12.1-0,  1.12.0-0,  1.10.3-0,  1.10.0-0,  1.8.0-0,  1.6.1-0,  1.4.2-0,  1.2.1-0,  1.0.3-0

Depends:

• bioconductor-beachmat >=2.10.0,<2.11.0

• bioconductor-biocgenerics >=0.40.0,<0.41.0

• bioconductor-biocparallel >=1.28.0,<1.29.0

• bioconductor-delayedarray >=0.20.0,<0.21.0

• bioconductor-delayedmatrixstats >=1.16.0,<1.17.0

• bioconductor-edger >=3.36.0,<3.37.0

• bioconductor-genomicranges >=1.46.0,<1.47.0

• bioconductor-hdf5array >=1.22.0,<1.23.0

• bioconductor-iranges >=2.28.0,<2.29.0

• bioconductor-rhdf5 >=2.38.0,<2.39.0

• bioconductor-rhdf5lib >=1.16.0,<1.17.0

• bioconductor-s4vectors >=0.32.0,<0.33.0

• bioconductor-scuttle >=1.4.0,<1.5.0

• bioconductor-singlecellexperiment >=1.16.0,<1.17.0

• bioconductor-summarizedexperiment >=1.24.0,<1.25.0

• libblas >=3.9.0,<4.0a0

• libgcc-ng >=12

• liblapack >=3.9.0,<4.0a0

• libstdcxx-ng >=12

• r-base >=4.1,<4.2.0a0

• r-bh

• r-dqrng

• r-matrix

• r-r.utils

• r-rcpp

Required By:

• scxa-plots

• bioconductor-singlecelltk

• cell-types-analysis

• dropletutils-scripts

• bioconductor-spatialexperiment

• r-acidsinglecell

• tximport-scripts

• bioconductor-sccb2

• bioconductor-spaniel

• r-acidplots

Installation

With an activated Bioconda channel (see set-up-channels), install with:

conda install bioconductor-dropletutils

and update with:

conda update bioconductor-dropletutils

or use the docker container:

docker pull quay.io/biocontainers/bioconductor-dropletutils:<tag>

(see bioconductor-dropletutils/tags for valid values for <tag>)

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