Software Updates 2021

2021-04-26: Julia 1.6.1

2021-04-03: R 4.0.5 (“Shake and Throw”)

  • R:
    • (upd) R to 4.0.5
    • (upd) rebuilding/updating all R packages
  • Python 3 (system-wide):
    • (new) Pyro 1.6.0Deep universal probabilistic programming with Python and PyTorch
    • (upd) various pkgs

2021-03-21: Julia 1.6

  • Julia:
    • Version 1.6 & rebuilding all pre-installed libraries
  • Python 3 (Anaconda 2020):
    • (new) lmfitprovides a high-level interface to non-linear optimization and curve fitting problems for Python
    • (new) periodictable-pyprovides an extensible periodic table of the elements pre-populated with data important to neutron and X-ray scattering experiments
  • Python 3 (system-wide):
    • (new) sktimespecialized time series algorithms and scikit-learn compatible tools to build, tune and validate time series models for multiple learning problems
    • (upd) various libs

2021-03-08: Bioconductor

  • R (system-wide):
    • (upd) refresh of all bioconductor packages, incl. oligo
    • (new) biomaRtprovides an interface to a growing collection of databases

2021-03-05: ASE, Papermill, etc.

  • Software
    • (new) papermillPapermill is a tool for parameterizing and executing Jupyter Notebooks.
    • (upd) system packages, some python packages, R, etc.
  • Python 3 (Anaconda 2020)
    • (new) ase – The Atomic Simulation Environment (ASE) is a set of tools and Python modules for setting up, manipulating, running, visualizing and analyzing atomistic simulations.*

2021-02-17: Rust 1.5

  • Software
    • (upd) Rust 1.5
    • (upd) various system packages

2021-01-28: Julia 1.5.3, MACS2, …

  • Julia:
    • (upd) to version 1.5.3 and updating all packages we provide per default
  • Software
    • (new) macs2 – Model-based Analysis of ChIP-Seq
    • various system package updates

2021-01-07: More Python libs!

  • Python 3 (system-wide):
    • (new) agate: a Python data analysis library that is optimized for humans instead of machines. It is an alternative to numpy and pandas that solves real-world problems with readable code.
    • (new) scrapy: An open source and collaborative framework for extracting the data you need from websites. In a fast, simple, yet extensible way.
    • (new) squarify: Pure Python implementation of the squarify treemap layout algorithm
    • (new) SHERPA: A Python Hyperparameter Optimization Library
  • various other package and software updates