pharmbio/MTBLS233-Pachyderm

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Apache License 2.0
Created over 7 years ago
Updated almost 7 years ago

pharmbio/MTBLS233-Pachyderm

pharmbio

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Scalable and reproducible metabolomics preprocessing workflow powered by Pachyderm

sciluigi

A light-weight wrapper library around Spotify's Luigi workflow library to make writing scientific workflows more fluent, flexible and modular

plaid

PLAID (Plate Layouts using Artificial Intelligence Design) is a flexible constraint-programming model representing the Plate Layout Design problem.

Jupyter Notebook

plot_utils

Repo that groups utility functions for e.g. plotting of Conformal prediction metrics

Jupyter Notebook

phil_LNP_modelling

Python code and jupyter notebooks to accompany the manuscript "Deep learning models for lipid-nanoparticle-based drug delivery"

Jupyter Notebook

robotlab

Cell painting and imaging with robots

cellprofiler-docker

Dockerfile to build a working CellProfiler (http://cellprofiler.org/) image

CP-Chem-MoA

Jupyter Notebook

imagedb

Image database for pharmbio microscope images

aros

Open Automated Robotic System for Biological Laboratories

LC-MS-Pachyderm

Start-to-end LC-MS-analysis workflow definition on Pachyderm

ptp-project

Project Source Code Repository for the project "Predicting Off-Target Binding Profiles with Confidence using Conformal Prediction"

dl_quantmap

Deep learning implementation of quantmap method

Jupyter Notebook

SCPRegression

Code for Synergy Conformal Prediction for Regression

urisolve

A simple web server enabling resolving RDF URIs based on data in a RDF HDT file, or a SPARQL endpoint

bioimg-sciluigi-casestudy

An automated virtual machine setup, containing a use case for running workflows written in SciLuigi

robotlab-labrobots

Web server to our LiCONiC incubator and BioTek washer and dispenser

kubeflow-pipelines

pharmbio-web

The Static (Hugo) website for pharmb.io

robot_lab_cameras

Setup for the live stream monitoring cameras of the robot lab

big-data_deeplearning

Big data course, Deep learning repo

Jupyter Notebook

clamp

pharmbio-notebook

Docker containers for interactive notebook environments for rancher cluster

cplogd

Code related to the conformal prediction log D project

robot-imager

IMX imaging using the PreciseFlex robot arm and LiCONiC fridge

big-data_course

Material for the Big Data in life science course

robot-cellpainter

Cell painting using the UR robot arm

scipipe-demo

Demonstrator workflows for the SciPipe paper in GigaScience

kensert_CNN

Jupyter Notebook

covid19-ptp

Predicted Target Profile towards proteins of interest for Covid-19

mdr

Portal for multi-drug resistant bacteria

nondisc-acp

Aggregated Conformal Prediction on non-disclosed dataset

incubator-automation

incubator-automation

PB-seq_2019_L9_machine_learning

pbcharts

Chart repository for Helm

shaker-robot

Shaker robot modifications and code

helm-charts

kensert_rf_sparse

labrobots-restserver-washer-dispenser

This repo is replaced with https://github.com/pharmbio/robotlab-labrobots and will be archived or deleted.

ai4dd

Material for the course AI for drug discovery

Jupyter Notebook

KT_LUPI

Knowledge transfer LUPI

labrobots-restserver

This repo is replaced with https://github.com/pharmbio/robotlab-labrobots and will be archived or deleted.

cplogd-v2.0

cpLodD version 2.0 - using ChEMBL v33

Jupyter Notebook

nw-cp

A master thesis on using Graph Neural Networks and Network Analysis approach in morphological profiling of chemical perturbated cells

assay-transition-study

Code used for running the experiments of the Assay transition study