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analysis-of-cancer-gene-mutations

Mutation Landscape of Cancer-Driver Genes Across Human Cancers

ancestree

An algorithm for clonal tree reconstruction from multi-sample cancer sequencing data

bashscripting-2874016

Learning Bash Scripting

batchremove.build

Matlab code for some popular batch effect correction methods

bayesian-spatial-psm

Bayesian spatial propensity score matching

biomarkers

Genetics of blood and urine biomarkers in the UK Biobank

bmapathway

MATLAB source code to accompany the PLoS Genetics paper, "Integrated enrichment analysis of variants and pathways in genome-wide association studies indicates central role for IL-2 signaling genes in type 1 diabetes, and cytokine signaling genes in Crohn's disease".

calling-python-from-matlab

catboost

A fast, scalable, high performance Gradient Boosting on Decision Trees library, used for ranking, classification, regression and other machine learning tasks for Python, R, Java, C++. Supports computation on CPU and GPU.

cello

[source] CELLO - Cancer EvoLution toolbox for LOngitudinal data

chmannot

Cancer Hallmark Annotator

circleplot

Class Circleplot Project

cmapm

Connectivity Map analysis in MATLAB

cmplot

📊 Circular and Rectangular Manhattan Plot

comfyui_visualstyleprompting

ComfyUI Version of "Visual Style Prompting with Swapping Self-Attention"

complexheatmap

make complex heatmaps as well as self define annotation graphics

course-content

Summer course content for Neuromatch Academy

course-content-dl

covid-19-prediction-in-africa-using-sir-model

covidpred

Machine Learning-based prediction of COVID-19 diagnosis based on symptoms

data-analysis

Data Analysis Using Python

data-science-repository

Contains code for the Data Science Specialization on Coursera

datasharing

The Leek group guide to data sharing

discover

DISCOVER co-occurrence and mutual exclusivity analysis for cancer genomics data

discover-notebooks

Jupyter notebooks for reproducing the analyses in the paper 'A novel independence test for somatic alterations in cancer shows that biology drives mutual exclusivity but chance explains most co-occurrence'

dndscv

dN/dS methods to quantify selection in cancer and somatic evolution

dream-preterm-birth-prediction-challenge-transcriptomics-sinkala

MATLAB code for making predictions for the DREAM Preterm Birth Prediction: see https://www.synapse.org/#!Synapse:syn18380862/wiki/ for details

dreamtools

Code sharing related to DREAM challenges

easy-t-test-and-plots

Perform T-test, Automated Transformation, Plotting and Reporting

eclipser

Enrichment of Causal Loci and Identification of Pathogenic cells in Single Cell Expression and Regulation data