https://github.com/ismms-himc/himc_dockers
Docker builds for all tools used by HIMC
https://github.com/ismms-himc/himc_dockers
Last synced: 2 months ago
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Docker builds for all tools used by HIMC
- Host: GitHub
- URL: https://github.com/ismms-himc/himc_dockers
- Owner: ismms-himc
- Created: 2022-10-28T20:56:34.000Z (over 2 years ago)
- Default Branch: main
- Last Pushed: 2023-03-17T15:18:30.000Z (about 2 years ago)
- Last Synced: 2025-03-05T08:43:06.028Z (3 months ago)
- Language: Dockerfile
- Size: 463 KB
- Stars: 0
- Watchers: 1
- Forks: 0
- Open Issues: 0
-
Metadata Files:
- Readme: README.md
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README
# himc_dockers
Docker builds for all tools used by HIMC. Base build contains R version 4.2.1,
Seurat and Seurat Disk
# To use on Minerva
`ml singularity`
`singularity pull docker://dsouzd04/himc_seurat`
`singularity shell himc_seurat.sif # go inside container`
`singularity exec R -e 'library(Seurat)' # run command`
# Tools
## Seurat v4.2.1
[Docker](https://hub.docker.com/repository/docker/dsouzd04/himc_seurat)
[Homepage](https://satijalab.org/seurat/)
## SPOTlight Bioconductor v1.0.0
[Docker](https://hub.docker.com/repository/docker/dsouzd04/himc_spotlight)
[Homepage](https://marcelosua.github.io/SPOTlight/)
## RCTD from spacexr v2.0.3
[Docker](https://hub.docker.com/repository/docker/dsouzd04/himc_rctd)
[Homepage](https://github.com/dmcable/spacexr)
## CARD v1.0.0
[Docker](https://hub.docker.com/repository/docker/dsouzd04/himc_card)
[Homepage](https://github.com/YingMa0107/CARD)
## Giotto v1.1.2
[Docker](https://hub.docker.com/repository/docker/dsouzd04/himc_giotto)
[Homepage](https://giottosuite.readthedocs.io/en/master/index.html)