JOSS: https://github.com/mpievolbio-scicomp/cancer_sim

cancer division mutation-profiles sampling simulation stochastic tumours

Score: 3.5553480614894135

Last synced: about 15 hours ago
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Repository metadata:

CancerSim: A python3 package for stochastic cancer simulation in 2D.

• Host: GitHub
• URL: https://github.com/mpievolbio-scicomp/cancer_sim
• Owner: mpievolbio-scicomp
• License: mit
• Created: 2019-12-17T12:01:37.000Z (over 6 years ago)
• Default Branch: master
• Last Pushed: 2020-09-24T06:23:20.000Z (almost 6 years ago)
• Last Synced: 2026-07-06T06:02:14.802Z (about 2 months ago)
• Topics: cancer, division, mutation-profiles, sampling, simulation, stochastic, tumours
• Language: Python
• Homepage: https://cancer-sim.readthedocs.io
• Size: 1.38 MB
• Stars: 7
• Watchers: 3
• Forks: 3
• Open Issues: 0
• Metadata Files:
  • Readme: README.md
  • License: LICENSE
  • Codemeta: codemeta.json

CodeMeta metadata:

• @context: https://raw.githubusercontent.com/codemeta/codemeta/master/codemeta.jsonld
• @type: Code
• Author:
  • • @id: 0000-0001-7595-1722
    • @type: Person
    • Email: opasic@evolbio.mpg.de
    • Name: Luka Opasic
    • Affiliation: Max-Planck-Institute for Evolutionary Biology, Plön, Germany
  • • @id: 0000-0003-2971-7673
    • @type: Person
    • Affiliation: Cleveland Clinic: Cleveland, OH, US
    • Name: Jacob G. Scott
  • • @id: 0000-0002-0669-5267
    • @type: Person
    • Affiliation: Max-Planck-Institute for Evolutionary Biology, Plön, Germany
    • Name: Arne Traulsen
  • • @id: 0000-0002-2579-5546
    • @type: Person
    • Email: carsten.fortmann-grote@evolbio.mpg.de
    • Name: Carsten Fortmann-Grote
    • Affiliation: Max-Planck-Institute for Evolutionary Biology, Plön, Germany
• Identifier:
• Code repository: https://github.com/mpievolbio-scicomp/cancer_sim
• Date published: 2020-03-16
• Date modified: 2020-03-16
• Date created: 2020-03-16
• Description: Here, we present CancerSim, a software that simulates somatic evolution of tumours. The software produces virtual spatial tumours with variable extent of intratumour genetic heterogeneity and realistic mutational profiles. Simulated tumours can be subjected to multi-region sampling to obtain mutation profiles that are realistic representation of the sequencing data. This makes the software useful for studying various sampling strategies in clinical cancer diagnostics. An early version of this cancer evolution model was used to simulate tumours subjected to sampling for classification of mutations based on their abundance [@Opasic2019]. Target users are scientists working in the field of mathematical oncology and students with interest in studying somatic evolution of cancer.
• Keywords: stochastic simulation, tumour growth, tumour sampling, cancer biology
• License: MIT
• Title: CancerSim
• Version: v2.0.1

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Owner metadata:

• Name: Scientific Computing @ Max-Planck-Institute for Evolutionary Biology
• Login: mpievolbio-scicomp
• Email:
• Kind: organization
• Description:
• Website: https://www.evolbio.mpg.de/scicomp
• Location: Plön, Germany
• Twitter:
• Company:
• Icon url: https://avatars.githubusercontent.com/u/48993535?v=4
• Repositories: 6
• Last Synced at: 2023-03-09T22:40:38.764Z
• Profile URL: https://github.com/mpievolbio-scicomp

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Committers metadata

Last synced: 3 days ago

Name	Email	Commits
Carsten Fortmann-Grote	c****e@e****e	115
Carsten Fortmann-Grote	g****c@.****e	94
Luka Opasic	o****c@e****e	21
Pierre de Buyl	p****l@p****e	1
c.fortmanngrote	g****c@e****e	1

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Issue and Pull Request metadata

Last synced: 1 day ago

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