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handson-ml

A series of Jupyter notebooks that walk you through the fundamentals of Machine Learning and Deep Learning in python using Scikit-Learn and TensorFlow.

idba

in-silico-labeling

Code for In silico labeling: Predicting fluorescent labels in unlabeled images

introneuralnetworks

Introducing neural networks to predict stock prices

kaiju

Fast taxonomic classification of metagenomic sequencing reads using a protein reference database

metalign

Metalign: efficient alignment-based metagenomic profiling via containment min hash

metaphase

The software involved in the MetaPhase project, as described in G3 (http://dx.doi.org/10.1534/g3.114.011825)

metashot

MetaShot (Metagenomics Shotgun) is a complete pipeline designed for the taxonomic classification of the human microbiota members. In MetaShot, third party tools and new developed Python and Bash scripts are integrated to analyze paired-end (PE) Illumina sequences, offering an automated procedure covering all the analysis steps from raw data management to taxonomic profiling. It is designed to analyze both DNA-Seq and RNA-Seq data.

models

Models and examples built with TensorFlow

mummer

Mummer alignment tool

nosqlbench-workshop-online

An online workshop using the NoSQLBench benchmarking tool

pathseq

personae

📈 Personae is a repo of implements and environment of Deep Reinforcement Learning & Supervised Learning for Quantitative Trading.

programmingassignment2

Repository for Programming Assignment 2 for R Programming on Coursera

prokka

:zap: :aquarius: Rapid prokaryotic genome annotation

pwas

Proteome-Wide Association Study

qiime2

Official repository for the QIIME 2 framework.

racon-gpu

Ultrafast consensus module for raw de novo genome assembly of long uncorrected reads

rapt

Read Assembly and Annotation Pipeline Tool

repeatmasker

RepeatMasker is a program that screens DNA sequences for interspersed repeats and low complexity DNA sequences.

rvdb

A reference viral database (RVDB)

sars-cov-2_sequencing

A collection of sequencing protocols and bioinformatic resources for SARS-CoV-2 sequencing.

scapp

SCAPP is a plasmid assembly tool. A preprint describing this tool is available at: https://www.biorxiv.org/content/10.1101/2020.01.12.903252v1

scrnaseq_benchmark

Bench-marking classification tools for scRNA-seq data

sentiment-analysis-in-event-driven-stock-price-movement-prediction

Use NLP to predict stock price movement associated with news

snp-pipeline

SNP Pipeline is a pipeline for the production of SNP matrices from sequence data used in the phylogenetic analysis of pathogenic organisms sequenced from samples of interest to food safety.

starch

Spatial Transcriptomics Algorithm Reconstructing Copy-number Heterogeneity

starfish

starfish: unified pipelines for image-based transcriptomics

stock-prediction-models

Gathers machine learning and deep learning models for Stock forecasting including trading bots and simulations

stock-price-prediction

Stock price prediction using LSTM and 1D Convoltional Layer implemented in keras with TF backend on daily closing price of S&P 500 data from Jan 2000 to Aug 2016