Here are
328 public repositories
matching this topic...
Code for the Nature Scientific Reports paper "Pathologist-level classification of histologic patterns on resected lung adenocarcinoma slides with deep neural networks." A sliding window framework for classification of high resolution whole-slide images, often microscopy or histopathology images.
Updated
Apr 20, 2020
Python
Personalized Genomics and Proteomics. Main diet: Ensembl, side dishes: SNPs
Updated
Jul 11, 2020
Python
A community-maintained repository of cancer clinical knowledge bases and databases focused on cancer variants.
Personal Cancer Genome Reporter (PCGR)
Detect germline or somatic variants from normal or tumour/normal whole-genome or targeted sequencing
Updated
Jan 27, 2020
Nextflow
Detect and visualize target mutations by scanning FastQ files directly
Putting machine learning in the hands of cancer biologists
Updated
Oct 27, 2017
Jupyter Notebook
A collection of small-sample, high-dimensional microarray data sets to assess machine-learning algorithms and models.
Cancer Imaging Phenomics Toolkit (CaPTk) is a software platform to perform image analysis and predictive modeling tasks. Documentation:
https://cbica.github.io/CaPTk/
Building classifiers using cancer transcriptomes across 33 different cancer-types
Updated
Apr 30, 2019
Jupyter Notebook
Analysis pipeline to detect germline or somatic variants from WGS / targeted sequencing
Updated
Aug 7, 2020
Nextflow
Gene fusion detection and visualization
A Slicer extension to provide a GUI around pyradiomics
Updated
Apr 20, 2020
Python
Provide R access to the NCI Genomic Data Commons portal.
Web client for CIViC: Clinical Interpretations of Variants in Cancer
Updated
Aug 12, 2020
JavaScript
Classifies genes as an oncogene, tumor suppressor gene, or as a non-driver gene by using Random Forests
Updated
May 20, 2020
Python
Backend Server for CIViC Project
Updated
Aug 12, 2020
HTML
3D hotspot mutation proximity analysis tool
Updated
Aug 22, 2019
Perl
An interactive web portal for exploring immuno-oncology data
Python package to annotate and visualize gene fusions.
Updated
Nov 9, 2019
Python
A Python-Tensorflow neural network for classifying cancer data
Updated
Jun 27, 2017
Python
Flask App for Cancer Donation Portal using basic Python, SQLite3, HTML, CSS and Javascript
Updated
Jun 23, 2020
Python
MATLAB implementation to segment breast lesions in ultrasound images (ICIAR 2016)
Updated
Oct 12, 2019
MATLAB
(No maintenance) Detect gene fusion directly from raw fastq files
Updated
Aug 13, 2017
Julia
Community-maintained list of resources that the CI4CC organization and the larger cancer informatics community have found useful or are developing.
CNN histopathologic tumor identifier.
Updated
Jul 24, 2019
Jupyter Notebook
Updated
Aug 11, 2020
HTML
Cancer Predisposition Sequencing Reporter (CPSR)
MAGERI - Assemble, align and call variants for targeted genome re-sequencing with unique molecular identifiers
List of IARC bioinformatics nextflow pipelines
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