recipe bioconductor-singlecellexperiment

S4 Classes for Single Cell Data

Homepage:

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

License:

GPL-3

Recipe:

/bioconductor-singlecellexperiment/meta.yaml

Defines a S4 class for storing data from single-cell experiments. This includes specialized methods to store and retrieve spike-in information, dimensionality reduction coordinates and size factors for each cell, along with the usual metadata for genes and libraries.

package bioconductor-singlecellexperiment

Versions:

1.16.0-0,  1.14.1-0,  1.12.0-1,  1.12.0-0,  1.10.1-0,  1.8.0-0,  1.6.0-1,  1.4.0-0,  1.2.0-0, 

1.16.0-0,  1.14.1-0,  1.12.0-1,  1.12.0-0,  1.10.1-0,  1.8.0-0,  1.6.0-1,  1.4.0-0,  1.2.0-0,  1.0.0-1,  1.0.0-0

Depends:

• bioconductor-biocgenerics >=0.40.0,<0.41.0

• bioconductor-delayedarray >=0.20.0,<0.21.0

• bioconductor-genomicranges >=1.46.0,<1.47.0

• bioconductor-s4vectors >=0.32.0,<0.33.0

• bioconductor-summarizedexperiment >=1.24.0,<1.25.0

• r-base >=4.1,<4.2.0a0

Required By:

• bioconductor-slingshot

• bioconductor-catalyst

• bioconductor-mousethymusageing

• bioconductor-scmap

• bioconductor-hippo

• bioconductor-muscat

• bioconductor-scruff

• bioconductor-singlecelltk

• bioconductor-experimentsubset

• bioconductor-feast

• bioconductor-busseq

• bioconductor-mast

• bioconductor-splatter

• bioconductor-nebulosa

• bioconductor-neuca

• bioconductor-scmerge

• bioconductor-basics

• bioconductor-imcrtools

• r-basejump

• bioconductor-clustifyr

• bioconductor-pipecomp

• bioconductor-tmexplorer

• bioconductor-adimpute

• bioconductor-mbkmeans

• bioconductor-chetah

• bioconductor-cydar

• bioconductor-dropletutils

• bioconductor-slalom

• r-bcbiosinglecell

• bioconductor-miqc

• bioconductor-scpipe

• bioconductor-corral

• bioconductor-iloreg

• bioconductor-zellkonverter

• bioconductor-tradeseq

• bioconductor-scdataviz

• bioconductor-celda

• bioconductor-imcdatasets

• bioconductor-scran

• bioconductor-scry

• bioconductor-mumosa

• bioconductor-escape

• bioconductor-hcadata

• bioconductor-screclassify

• bioconductor-isee

• bioconductor-bearscc

• bioconductor-spatiallibd

• bioconductor-peco

• bioconductor-singlecellmultimodal

• bioconductor-metaneighbor

• bioconductor-dittoseq

• bioconductor-bayesspace

• r-acidsinglecell

• bioconductor-singlecellexperiment-scripts

• bioconductor-lineagepulse

• bioconductor-milor

• bioconductor-velociraptor

• singlecellnet-cli

• bioconductor-infercnv

• bioconductor-netsmooth

• bioconductor-condiments

• bioconductor-scrnaseq

• bioconductor-sctreeviz

• bioconductor-citefuse

• bioconductor-trajectoryutils

• r-harmony

• bioconductor-iseeu

• bioconductor-scatac.explorer

• bioconductor-newwave

• bioconductor-tabulamurissenisdata

• bioconductor-irisfgm

• bioconductor-cellbench

• bioconductor-sctensor

• bioconductor-conclus

• bioconductor-sccb2

• bioconductor-scpdata

• bioconductor-tricycle

• bioconductor-vaexprs

• bioconductor-tscan

• bioconductor-batchelor

• bioconductor-schex

• r-acidplots

• bioconductor-scbfa

• bioconductor-waddr

• bioconductor-chromscape

• bioconductor-scgps

• bioconductor-clusterexperiment

• bioconductor-spatialexperiment

• r-monocle3

• bioconductor-distinct

• bioconductor-cellmixs

• bioconductor-scds

• bioconductor-tidysinglecellexperiment

• bioconductor-loomexperiment

• bioconductor-scone

• bioconductor-scannotatr

• bioconductor-mousegastrulationdata

• bioconductor-scp

• bioconductor-flames

• bioconductor-cytomapper

• bioconductor-fishpond

• bioconductor-traviz

• bioconductor-celltrails

• bioconductor-gsva

• bioconductor-scclassifr

• bioconductor-spsimseq

• bioconductor-spaniel

• bioconductor-scdd

• bioconductor-destiny

• bioconductor-scalign

• bioconductor-baynorm

• bioconductor-powsc

• bioconductor-switchde

• bioconductor-tenxbraindata

• bioconductor-tenxpbmcdata

• bioconductor-treesummarizedexperiment

• bioconductor-sctgif

• r-sceasy

• bioconductor-scater

• bioconductor-ggspavis

• bioconductor-cepo

• bioconductor-schot

• bioconductor-cogaps

• bioconductor-airpart

• bioconductor-mia

• bioconductor-aggregatebiovar

• bioconductor-muscdata

• bioconductor-dino

• bioconductor-scnorm

• bioconductor-fcoex

• dropletutils-scripts

• scmap-cli

• bioconductor-scuttle

• bioconductor-scdblfinder

• bioconductor-cellid

• bioconductor-treekor

• bioconductor-scarray

• bioconductor-zinbwave

• bioconductor-ccfindr

• bioconductor-sc3

Installation

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

conda install bioconductor-singlecellexperiment

and update with:

conda update bioconductor-singlecellexperiment

or use the docker container:

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

(see bioconductor-singlecellexperiment/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/bioconductor-singlecellexperiment/README.html)