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16s_qiime2

Snakemake based 16S QIIME2 pipeline

abrigahit

Snakefile for assembly of metagenomes with Megahit and resistome profiling with Abricate

alignment

Spliced alignment evaluation software

anf

Affinity Network Fusion

autocd

Automated synthetic microbial Community Design

awesome-bioinformatics

A curated list of awesome Bioinformatics libraries and software.

awesome-multi-omics

List of software packages for multi-omics analysis

bhattlab_workflows

Computational workflows for metagenomics tasks, by the Bhatt lab

bioinformatics_curriculum

Some ideas on things to learn to get started with bioinformatics

burrito

A visualization tool for exploratory data analysis of metagenomic data

comets

Computation of Microbial Ecosystems in Time and Space

cometspy

Python interface for running COMETS simulations and analyzing the results

coursera-machine-learning-1

Coursera's Machine Learning by Andrew Ng

coursera-practical-machine-learning

coursera-statistical-inference

Coursera's Statistical Inference Data Science course

courses

Course materials for the Data Science Specialization: https://www.coursera.org/specialization/jhudatascience/1

coverage

RGASP3 coverage statistics pipeline

datasciencecoursera

assignment for coursera course

datasciencectacontent

repository for Community Mentor content related to the Johns Hopkins University Data Science Specialization on Coursera

datasharing

The Leek group guide to data sharing

datest

Compare different differential abundance and expression methods

deepcry

Neonatal Cry Detector

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.

drnasb

dualrnaseq

Analysis of Dual RNA-seq data - an experimental method for interrogating host-pathogen interactions through simultaneous RNA-seq.

e-flow

vngFCM is a package designed to analyse fluocytometry data of small bacterial cells.

econml

ALICE (Automated Learning and Intelligence for Causation and Economics) is a Microsoft Research project aimed at applying Artificial Intelligence concepts to economic decision making. One of its goals is to build a toolkit that combines state-of-the-art machine learning techniques with econometrics

eukdetect

exdata_plotting1

Plotting Assignment 1 for Exploratory Data Analysis

exploratory_data_analysis_coursera

Final Assignment - Project 2