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a package for orthogonal linear separation analysis (OLSA)

Project description


OLSApy: Orthogonal Linear Separation Analysis in Python

  • OLSA is an analysis method of omics data to decompose the complex effects of a perturbagen into basic components.
  • OLSApy is a package for OLSA in python.
  • OLSA can be applied to any kinds of omics data such as RNA-seq, proteome, and so on.


  • python >= 3.6
  • requirements: numpy, pandas, scipy


pip install olsapy
For conda, please use conda skeleton


from olsapy import olsa

df = <a dataframe of interest (feature x sample)>

### calculation
dat = olsa.OLSA()
dat.olsa(accumulation=0.6) # accumulation determines the vectors subjected to varimax rotation
rsm,rvm,ts,contribution = dat.get_res()
### visualization
dat.plot(focus=[<sample names of interest>])

### visualization of already prepared data
dat.plot(rsm,focus=[<sample names of interest>])


This software is released under the MIT License, see LICENSE.


Setsuo Kinoshita, Shotaro Maedera, and Tadahaya Mizuno


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If you would like to report any bugs about olsapy, don't hesitate to create an issue on github here, or email me:

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