loomR
An R interface for loom files
For more information on loom files, please see the documentation for loompy
Tutorial
A tutorial for loomR can be found here. A full function and method reference can be found here.
Compatability with loompy
loomR aims to be completely compatible with loompy. Currently, loomR implements the following methods of the loompy API:
- map/apply
- create
- connect
- combine
- subset
- add layer
- add attriute
- add graph
- add cells
- add loom
Dependencies
loomR depends on:
- R v3.4.x
- The R6 package
- The hdf5r package
- The iterators package
- The itertools package
- The HDF5 C++ API
To get the HDF5 C++ API, please see the table below:
| Operating system | Command |
|---|---|
| macOS | Using Homebrew, brew install hdf5 |
| Debian and Debian-based OSes | sudo apt install libhdf5-dev |
| Red Hat-based OSes | sudo dnf install hdf5-devel or sudo yum install hdf5-devel |
| Windows | Download precombiled binaries from Mario Annau here |
