- recipe bioconductor-oscope
Oscope - A statistical pipeline for identifying oscillatory genes in unsynchronized single cell RNA-seq
- Homepage:
https://bioconductor.org/packages/3.16/bioc/html/Oscope.html
- License:
Artistic-2.0
- Recipe:
- Links:
biotools: oscope, doi: 10.1038/nmeth.3549
Oscope is a statistical pipeline developed to identifying and recovering the base cycle profiles of oscillating genes in an unsynchronized single cell RNA-seq experiment. The Oscope pipeline includes three modules: a sine model module to search for candidate oscillator pairs; a K-medoids clustering module to cluster candidate oscillators into groups; and an extended nearest insertion module to recover the base cycle order for each oscillator group.
- package bioconductor-oscope¶
-
- Versions:
1.28.0-0
,1.24.0-0
,1.22.0-0
,1.20.0-1
,1.20.0-0
,1.18.0-0
,1.16.0-0
,1.14.0-1
,1.14.0-0
,1.28.0-0
,1.24.0-0
,1.22.0-0
,1.20.0-1
,1.20.0-0
,1.18.0-0
,1.16.0-0
,1.14.0-1
,1.14.0-0
,1.12.1-0
,1.12.0-0
,1.10.0-0
,1.8.0-0
,1.6.0-0
- Depends:
bioconductor-biocparallel
>=1.32.0,<1.33.0
bioconductor-ebseq
>=1.38.0,<1.39.0
r-base
>=4.2,<4.3.0a0
- Required By:
Installation
With an activated Bioconda channel (see set-up-channels), install with:
conda install bioconductor-oscope
and update with:
conda update bioconductor-oscope
or use the docker container:
docker pull quay.io/biocontainers/bioconductor-oscope:<tag>
(see bioconductor-oscope/tags for valid values for
<tag>
)
Download stats¶
Link to this page¶
Render an badge with the following MarkDown:
[](http://bioconda.github.io/recipes/bioconductor-oscope/README.html)