RT Journal Article
SR Electronic
T1 pySuStaIn: a Python implementation of the Subtype and Stage Inference algorithm
JF bioRxiv
FD Cold Spring Harbor Laboratory
SP 2021.06.09.447713
DO 10.1101/2021.06.09.447713
A1 Aksman, Leon M.
A1 Wijeratne, Peter A.
A1 Oxtoby, Neil P.
A1 Eshaghi, Arman
A1 Shand, Cameron
A1 Altmann, Andre
A1 Alexander, Daniel C.
A1 Young, Alexandra L.
YR 2021
UL http://biorxiv.org/content/early/2021/06/10/2021.06.09.447713.abstract
AB Progressive disorders are highly heterogeneous. Symptom-based clinical classification of these disorders may not reflect the underlying pathobiology. Data-driven subtyping and staging of patients has the potential to disentangle the complex spatiotemporal patterns of disease progression. Tools that enable this are in high demand from clinical and treatment-development communities. Here we describe the pySuStaIn software package, a Python-based implementation of the Subtype and Stage Inference (SuStaIn) algorithm. SuStaIn unravels the complexity of heterogeneous diseases by inferring multiple disease progression patterns (subtypes) and individual severity (stages) from cross-sectional data. The primary aims of pySuStaIn are to enable widespread application and translation of SuStaIn via an accessible Python package that supports simple extension and generalization to novel modelling situations within a single, consistent architecture.Code metadata Current code version v1.0Permanent link to code/repository used of this code version https://github.com/ucl-pond/pySuStaInLegal Code License MITCode versioning system used gitSoftware code languages, tools, and services used PythonCompilation requirements, operating environments & dependencies Linux, Mac, WindowsSupport email for questions leon.aksman{at}loni.usc.edu, p.wijeratne{at}ucl.ac.uk, alexandra.young{at}kcl.ac.ukCompeting Interest StatementThe authors have declared no competing interest.