Description

From the Biopython Home Page: Biopython Biopython is a set of freely available tools for biological computation written in Python by an international team of developers.

It is a distributed collaborative effort to develop Python libraries and applications which address the needs of current and future work in bioinformatics.

Biopython can be installed by using the Anaconda 2.7 python bundle or 3.6 miniconda bundle apps on the cluster. Alternatively, and preferably, you may want to install a local copy of miniconda.

#change to Miniconda3-latest-Linux-x86_64.sh if you prefer python 3.6

1) cd $HOME
2) wget https://repo.continuum.io/miniconda/Miniconda2-latest-Linux-x86_64.sh
3) chmod +x Miniconda2-latest-Linux-x86_64.sh
4) ./Miniconda2-latest-Linux-x86_64.sh
5) export PATH=$HOME/miniconda2/bin:$PATH

#open a bash window
conda install biopython

 

Version

• 1.71 (python 3.6)
• 1.70 (python 2.7)

Authorized Users

• CIRCE account holders
• SC account holders

Platforms

• CIRCE cluster
• RRA cluster
• SC cluster

Modules

• NA

Documentation

Home Page, User Guides, and Manuals

• Biopython Home Page:
  • http://biopython.org/
• Biopython User Guide:
  • http://biopython.org/wiki/Documentation
  • http://biopython.org/DIST/docs/tutorial/Tutorial.html
  • http://biopython.org/wiki/Category%3ACookbook

More Job Information

See the following for more detailed job submission information:

• SLURM User’s Guide
• Scheduling and Dispatch Policies
• Advanced Submit Techniques

Reporting Bugs

Report bugs with Biopython to the IT Help Desk: rc-help@usf.edu