GitHub topics: tumor-evolution
AntonioDeFalco/SCEVAN
R package that automatically classifies the cells in the scRNA data by segregating non-malignant cells of tumor microenviroment from the malignant cells. It also infers the copy number profile of malignant cells, identifies subclonal structures and analyses the specific and shared alterations of each subpopulation.
Language: HTML - Size: 63 MB - Last synced at: 6 days ago - Pushed at: 2 months ago - Stars: 104 - Forks: 27
RJain12/GlioMod
https://doi.org/10.5281/zenodo.6941367 - Spatiotemporal-Aware Glioblastoma Multiforme Tumor Growth Modeling with Deep Encoder-Decoder Networks
Language: MATLAB - Size: 1.61 MB - Last synced at: 8 days ago - Pushed at: over 2 years ago - Stars: 4 - Forks: 0
pedrofale/tumorevo
Simulate the evolution and treatment of tumors and generate bulk, single-cell and spatial data from them.
Language: Jupyter Notebook - Size: 805 KB - Last synced at: about 1 month ago - Pushed at: 4 months ago - Stars: 6 - Forks: 0
HautaniemiLab/jellyfisher
R htmlwidget for Jellyfish
Language: R - Size: 2.45 MB - Last synced at: 22 days ago - Pushed at: 3 months ago - Stars: 4 - Forks: 0
HautaniemiLab/jellyfish
Jellyfish plots for integrative visualization of spatio-temporal tumor evolution and clonal dynamics
Language: TypeScript - Size: 533 KB - Last synced at: about 2 months ago - Pushed at: 3 months ago - Stars: 2 - Forks: 0
Ninavd/tumor-dynamics-abm
Project on ABM tumor growth for the Agent-Based Modeling course at the UvA 2023-2024
Language: Python - Size: 19.7 MB - Last synced at: 7 months ago - Pushed at: 8 months ago - Stars: 1 - Forks: 0
AngryMaciek/warlock
Warlock is a snakemake workflow to spawn multiple demons (deme-based oncology models) as jobs running around on a cluster environment 😈😈
Language: Python - Size: 284 KB - Last synced at: 6 months ago - Pushed at: 11 months ago - Stars: 2 - Forks: 0
raphael-group/scarlet
SCARLET (Single-cell Algorithm for Reconstructing Loss-supported Evolution of Tumors) is an algorithm that reconstructs tumor phylogenies from single-cell DNA sequencing data. SCARLET uses a loss-supported model that constrains mutation losses based on observed copy-number data.
Language: Limbo - Size: 287 KB - Last synced at: 10 months ago - Pushed at: over 1 year ago - Stars: 8 - Forks: 4
cancersysbio/gastric_organoid_evolution
Deterministic evolution and stringent selection during pre-neoplasia
Language: HTML - Size: 4.26 MB - Last synced at: 6 months ago - Pushed at: about 2 years ago - Stars: 5 - Forks: 1
algo-cancer/PhISCS-BnB
A Fast Branch and Bound Algorithm for the Perfect Tumor Phylogeny Reconstruction Problem
Language: Python - Size: 11.8 MB - Last synced at: over 1 year ago - Pushed at: over 4 years ago - Stars: 8 - Forks: 3
FunGeST/Palimpsest
An R package for studying mutational signatures and structural variant signatures along clonal evolution in cancer.
Language: R - Size: 58.2 MB - Last synced at: over 1 year ago - Pushed at: almost 4 years ago - Stars: 67 - Forks: 19
ggirelli/tepp 📦
Tumor Evolution Paths Project
Language: R - Size: 414 KB - Last synced at: over 2 years ago - Pushed at: almost 10 years ago - Stars: 1 - Forks: 0
ggirelli/tema 📦
TEMA (Tumor Evolution Manager and Analyzer)
Language: PHP - Size: 190 MB - Last synced at: over 2 years ago - Pushed at: almost 10 years ago - Stars: 1 - Forks: 0
zengliX/SIFA
SIFA: identify tumor subclones and infer phylogenetic tree from WGS data
Language: R - Size: 2.16 MB - Last synced at: over 2 years ago - Pushed at: about 7 years ago - Stars: 3 - Forks: 0
cabustillo13/Analisis-DICOM-biomedicas
Comparación y análisis de la progresión de tumores en cerebros.
Language: Python - Size: 549 KB - Last synced at: about 2 years ago - Pushed at: almost 5 years ago - Stars: 0 - Forks: 0
abrie/tumor-gradient
Measuring a tumor's density gradient during treatment.
Language: Python - Size: 480 KB - Last synced at: 3 months ago - Pushed at: almost 3 years ago - Stars: 0 - Forks: 0
alexandrutomescu/SNV-PPILP
Refined SNV calling for tumor data using perfect phylogenies and ILP
Language: Python - Size: 2.15 MB - Last synced at: over 2 years ago - Pushed at: over 6 years ago - Stars: 0 - Forks: 0
