MD Anderson Cancer Center - Dept. of Bioinformatics and Computational Biology

MD Anderson Cancer Center - Dept. of Bioinformatics and Computational Biology's repositories

BatchEffectsPackage

The MBatch R package and Docker image are designed to help assess and correct for batch effects.

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NG-CHM

A dynamic, graphical environment for exploration of clustered or non-clustered heat map data in a web browser.

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NGCHM-R

An R library for creating Next-Generation Clustered Heat Maps (NG-CHM)

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MetaBatchOmicBrowser

Web application for viewing metabolomics batch effects analyses, as seen at https://bioinformatics.mdanderson.org/MOB/

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EGFR-Structure-Function-Nature-Manuscript

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MetaBatchAnalyzer

Turnkey Docker Stack system for evaluating and visualizing batch effects in metabolomics data, with the ability to download data from Metabolomics Workbench for analysis.

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Reverse-Phase Protein Array Super Position and Concentration EvaluationThe RPPASPACE R package provides tools for the analysis of reverse-phase protein arrays (RPPAs), which are also known as "tissue lysate arrays" or simply "lysate arrays". The package's primary purpose is to input a set of quantification files representing dilution series of samples and control points taken from scanned RPPA slides and determine a relative log concentration value for each valid dilution series present in each slide and provide graphical visualization of the input and output data and their relationships. Other optional features include generation of quality control scores for judging the quality of the input data, spatial adjustment of sample points based on controls added to the slides, and various types of normalization of calculated values across a set of slides. The package was derived from a previous package called SuperCurve. For a detailed description of data inputs and outputs and usage information see the vignette "Guide_to_RPPASPACE".

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BatchEffectsInterfaceStack

Docker Compose Stack for running Batch Effects Interface

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BatchEffectsPackageData

Data Repo for BatchEffectsPackage

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BCBBuildDocs

Documentation for GitLab CI/CD with Docker

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DataAPI

DataAPI is a project for accesing and viewing the data and analysis (particulary of Batch Effects) of large datasets in Standardized Data format.

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ldap-jwt

Lightweight node.js based web service that provides user authentication against LDAP server (Active Directory / Windows network) credentials and returns a JSON Web Token.

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