recipe bioconductor-dropletutils

Utilities for Handling Single-Cell Droplet Data

Homepage:

https://bioconductor.org/packages/3.16/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:

1.18.0-0,  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, 

1.18.0-0,  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 >=2.14.0,<2.15.0

• bioconductor-biocgenerics >=0.44.0,<0.45.0

• bioconductor-biocparallel >=1.32.0,<1.33.0

• bioconductor-delayedarray >=0.24.0,<0.25.0

• bioconductor-delayedmatrixstats >=1.20.0,<1.21.0

• bioconductor-edger >=3.40.0,<3.41.0

• bioconductor-genomicranges >=1.50.0,<1.51.0

• bioconductor-hdf5array >=1.26.0,<1.27.0

• bioconductor-iranges >=2.32.0,<2.33.0

• bioconductor-rhdf5 >=2.42.0,<2.43.0

• bioconductor-rhdf5lib >=1.20.0,<1.21.0

• bioconductor-s4vectors >=0.36.0,<0.37.0

• bioconductor-scuttle >=1.8.0,<1.9.0

• bioconductor-singlecellexperiment >=1.20.0,<1.21.0

• bioconductor-summarizedexperiment >=1.28.0,<1.29.0

• libblas >=3.9.0,<4.0a0

• libgcc-ng >=12

• liblapack >=3.9.0,<4.0a0

• libstdcxx-ng >=12

• r-base >=4.2,<4.3.0a0

• r-bh

• r-dqrng

• r-matrix

• r-r.utils

• r-rcpp

Required By:

• cell-types-analysis

• scxa-plots

• cellqc

• bioconductor-spatialexperiment

• bioconductor-sccb2

• tximport-scripts

• r-acidplots

• bioconductor-singlecelltk

• bioconductor-spaniel

• r-acidsinglecell

• dropletutils-scripts

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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