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book

All programming languages books

calour

exploratory and interactive microbiome analyses based on heatmaps

coursera-dl

Script for downloading Coursera.org videos and naming them.

gneiss

compositional data analysis and visualization toolbox

keras

R Interface to Keras

kraken

Kraken taxonomic sequence classification system

microbiomehd

Cross-disease comparison of case-control gut microbiome studies

phyloseq

phyloseq is a set of classes, wrappers, and tools (in R) to make it easier to import, store, and analyze phylogenetic sequencing data; and to reproducibly share that data and analysis with others. See the phyloseq front page:

pm_rscript

python-for-data-analysis

An introduction to data science using Python and Pandas with Jupyter notebooks.

raman

Deep CNN for Raman Applications

random-functions

R functions for which I want some version control

scikit-bio

scikit-bio is an open-source, BSD-licensed, Python package providing data structures, algorithms, and educational resources for bioinformatics.

snownlp

Python library for processing Chinese text

soh_microbiome

This repo contains codes for reproducing of all analyses in the "SoH" microbiome project.

xgboost

Scalable, Portable and Distributed Gradient Boosting (GBDT, GBRT or GBM) Library, for Python, R, Java, Scala, C++ and more. Runs on single machine, Hadoop, Spark, Flink and DataFlow