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brca_multiomics

Survival and drug response prediction for BRCA patients

breast-cancer-predictor

A Flask based web application to predict breast cancer.

breast-cancer-risk-prediction

Classification of Breast Cancer diagnosis Using Support Vector Machines

breast-cancer-sub-types

A novel self-supervised feature extraction method using omics data is proposed which improves classification in most of the classifiers.

breast_cancer

A text-based computational framework for patient -specific modeling for classification of cancers. iScience (2022).

breast_cancer_classifier

Deep Neural Networks Improve Radiologists' Performance in Breast Cancer Screening

bulk-rnaseq-analysis

A complete guide for analyzing bulk RNA-seq data. Go from raw FASTQ files to mapping reads using STAR and differential gene expression analysis using DESeq2, using example data from Guo et al. 2019.

caltech-cs155-2022

Assignments for Machine Learning & Data Assimilation, Winter 2022

cansysbio

A repository for Jupyter Notebooks associated with Vanderbilt's Cancer Systems Biology course

catalyst.jl

Chemical reaction network and systems biology interface for scientific machine learning (SciML). High performance, GPU-parallelized, and O(1) solvers in open source software.

cbioportal

cBioPortal for Cancer Genomics

cc3d_build_scripts

build scripts for CC3D - used to automatize CC3D buids

cell2cell

User-friendly tool to infer cell-cell interactions and communication from gene expression of interacting proteins

cell2location

Comprehensive mapping of tissue cell architecture via integrated single cell and spatial transcriptomics (cell2location model)

cellcall

inferring cell-cell communication from scRNA-seq of ligand-receptor

cellchat

R toolkit for inference, visualization and analysis of cell-cell communication from single-cell data

cellclassificationmachinelearning

Single Cell Classification using RNA-seq data and Supervised Learning Algorithms

cellcutter

Create thumbnails of cells in a given image.

cellnopt

Training of logic models of signalling networks using prior knowledge networks and perturbation data.

cellnoptr

Training of boolean logic models of signalling networks using prior knowledge networks and perturbation data.

cellphonedb

cellsignal-cell-image-analysis

Disentangling biological signal from experimental noise in cellular images.

cellsignalanalysis

Identify major cellular signals in bulk transcriptomes

cellsort

This toolbox includes routines for using principal component analysis (PCA)

celseq2

Generate the UMI count matrix from CEL-Seq2 sequencing data

cfdna

Analysis of epigenetic signals captured by fragmentation patterns of cell-free DNA

cgview-builder

cgview-js

CGView.js creates interactive circular and linear genome maps.

chatgpt-wrapper

API for interacting with ChatGPT and GPT4 using Python and from Shell.

cheminformatics

Facilitates searching, screening, and organizing large chemical databases