r-bioc-alabaster.schemas
Schemas for the Alabaster Framework
Stores all schemas required by various alabaster.* packages. No
computation should be performed by this package, as that is handled by
alabaster.base. We use a separate package instead of storing the schemas
in alabaster.base itself, to avoid conflating management of the schemas
with code maintenence.
atomes
atomic-scale 3D modeling toolbox
Atomes is a tool box to analyze (physico-chemical properties calculations),
visualize (atoms, bonds, colormaps, measurements, coordination polyedra ...)
create (crystal builder, molecular library, surface creation and
passivation ...) 3D atomistic models.
Atomes offers a workspace capable of handling many projects opened
simultaneously.
The different projects in the workspace can exchange data: analysis results,
atomic coordinates...
Atomes also provides an advanced input preparation system for further
calculations using well known molecular dynamics codes:
Classical MD: DLPOLY and LAMMPS
- ab-initio MD: CPMD and CP2K
- QM-MM MD: CPMD and CP2K
To prepare the input files for these calculations is likely to be the key, and
most complicated step towards MD simulations.
Atomes offers a user-friendly assistant to help and guide the scientist step
by step to achieve this crucial step.
libnvrtc-builtins11.7
CUDA Runtime Compilation (NVIDIA NVRTC Builtins Library)
CUDA Runtime Compilation library (nvrtc) provides an API to compile
CUDA-C++ device source code at runtime.
sass-stylesheets-bulma
Sass and CSS framework using flexbox
Bulma is a Sass and CSS framework
that provides ready-to-use frontend components
that you can easily combine to build responsive web interfaces.
ruby-ipaddr
class to manipulate an IP address in ruby
IPAddr provides a set of methods to manipulate an IP address.
Both IPv4 and IPv6 are supported.
r-bioc-gsvadata
Data employed in the vignette of the GSVA package
This package stores the data employed in the vignette of the GSVA package.
These data belong to the following publications:
- Armstrong et al. Nat Genet 30:41-47, 2002
- Cahoy et al. J Neurosci 28:264-278, 2008
- Carrel and Willard, Nature, 434:400-404, 2005
- Huang et al. PNAS, 104:9758-9763, 2007
- Pickrell et al. Nature, 464:768-722, 2010
- Skaletsky et al. Nature, 423:825-837
- Verhaak et al. Cancer Cell 17:98-110, 2010