xiaohuiyang's repositories
AML_Analysis
Hierarchical Dirichlet Process for clustering 2500 Patients based on their molecular profile (genes + cytos). Machine Learning for Survival Analysis (DeepSurv , RSF , SVM Regressor, Cox Models , ...) and integration of HDP components into modelling for prognosis. Comparison of state of the art models and evaluation of molecular contributors for cumulative incidence , relapse free survival , survival after first CR and overall survival
ALLHiC
A package to scaffolding polyploidy or heterozygosis genome using Hi-C data
AML-multistage
Code accompanying Precision oncology for acute myeloid leukemia using a knowledge bank approach
canu
A single molecule sequence assembler for genomes large and small.
pbdagcon
A sequence consensus algorithm implementation based on using directed acyclic graphs to encode multiple sequence alignment
preAML
Code accompanying Prediction of AML risk in healthy individuals by Abelson, Collord, et al. (2018), Nature, 559:400-404
racon
Ultrafast consensus module for raw de novo genome assembly of long uncorrected reads. http://genome.cshlp.org/content/early/2017/01/18/gr.214270.116
test
test