Pinned Repositories
amplicon_sequencing_pipeline
Pipeline for computing OTU tables from 16S or ITS amplicon sequencing data.
CADA
ComBat-seq
Batch effect adjustment based on negative binomial regression for RNA sequencing count data
DeepMicro
Deep representation learning for disease prediction based on microbiome data
dowhy
DoWhy is a Python library for causal inference that supports explicit modeling and testing of causal assumptions. DoWhy is based on a unified language for causal inference, combining causal graphical models and potential outcomes frameworks.
feature-engineering-and-feature-selection
A Guide for Feature Engineering and Feature Selection, with implementations and examples in Python.
google_nmt_tutorial
TensorFlow Neural Machine Translation Tutorial
kraken2
The second version of the Kraken taxonomic sequence classification system
KrakenTools
KrakenTools provides individual scripts to analyze Kraken/Kraken2/Bracken/KrakenUniq output files
mAML1.0
Automated machine learning model building pipeline for microbiome data
Chengyao-Peng's Repositories
Chengyao-Peng/CADA
Chengyao-Peng/mAML1.0
Automated machine learning model building pipeline for microbiome data
Chengyao-Peng/amplicon_sequencing_pipeline
Pipeline for computing OTU tables from 16S or ITS amplicon sequencing data.
Chengyao-Peng/ComBat-seq
Batch effect adjustment based on negative binomial regression for RNA sequencing count data
Chengyao-Peng/DeepMicro
Deep representation learning for disease prediction based on microbiome data
Chengyao-Peng/dowhy
DoWhy is a Python library for causal inference that supports explicit modeling and testing of causal assumptions. DoWhy is based on a unified language for causal inference, combining causal graphical models and potential outcomes frameworks.
Chengyao-Peng/feature-engineering-and-feature-selection
A Guide for Feature Engineering and Feature Selection, with implementations and examples in Python.
Chengyao-Peng/google_nmt_tutorial
TensorFlow Neural Machine Translation Tutorial
Chengyao-Peng/kraken2
The second version of the Kraken taxonomic sequence classification system
Chengyao-Peng/KrakenTools
KrakenTools provides individual scripts to analyze Kraken/Kraken2/Bracken/KrakenUniq output files
Chengyao-Peng/link-prediction
Representation learning for link prediction within social networks
Chengyao-Peng/lskScripts
A placeholder for all my random scripts. Some scripts might eventually graduate and go to their own projects, so don't be surprised if anything leaves in the future.
Chengyao-Peng/masterThesis
Chengyao-Peng/Meta-Signer
Chengyao-Peng/metaml
Chengyao-Peng/MicNetToolbox
Deconstructing a microbial interaction network
Chengyao-Peng/microbiome
Microbiome repository
Chengyao-Peng/MiRKATMC
The Microbiome Regression-based Kernel Association Test for multi-categorical (nominal or ordinal) data
Chengyao-Peng/Nested-Cross-Validation
Nested cross-validation for unbiased predictions. Can be used with Scikit-Learn, XGBoost, Keras and LightGBM, or any other estimator that implements the scikit-learn interface.
Chengyao-Peng/pyComBat
pyComBat is a Python 3 implementation of ComBat, one of the most widely used tool for correcting technical biases, called batch effects, in microarray expression data.
Chengyao-Peng/qiime
Official QIIME 1 software repository. QIIME 2 (https://qiime2.org) has succeeded QIIME 1 as of January 2018.
Chengyao-Peng/rosalind-solutions
my solutions to problems from Rosalind.
Chengyao-Peng/Struo2
Scalable creating/updating of metagenome profiling databases
Chengyao-Peng/sva-devel
Chengyao-Peng/triplot
Triplot: Instance- and data-level explanations for the groups of correlated features.