md-anderson-bioinformatics Goto Github PK

acluster

R package for approximate hierarchical clustering.

batcheffectsinterfacestack

Docker Compose Stack for running Batch Effects Interface

batcheffectspackage

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

batcheffectspackagedata

Data Repo for BatchEffectsPackage

bcbbuilddocs

Documentation for GitLab CI/CD with Docker

dataapi

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

egfr-structure-function-nature-manuscript

genepattern_ngchm_basicbuilder

A GenePattern module to build NGCHM in GenePattern notebook

genepattern_ngchm_viewer

A GenePattern Module to view NGCHM in GenePattern Notebook

genesurvey

Gene Survey R package - take TCGA Standardized Data and make gene level cross-disease and sometimes cross platform comparisons and evaluations simpler to perform

gsaccess

The GSAccess application provides a Java link between the data and the Gene Survey R package

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.

mbatch

Superseded by https://github.com/MD-Anderson-Bioinformatics/BatchEffectsPackage

mbatchimage

Superseded by https://github.com/MD-Anderson-Bioinformatics/BatchEffectsPackage

md-anderson-bioinformatics.r-universe.dev

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.

metabatchomicbrowser

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

neoimmuno

ng-chm

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

ng-chm-artifacts

ng-chm-viewer-source-documentation

ng-chm_galaxy

Next-Generation Clustered Heat Maps for Galaxy

ng-chm_gui_builder

Simple graphical builder for Next-Generation Clustered Heat Maps

ngchm-r

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

ngchmdemodata

Demo Data for NGCHM R package.

ngchmsupportfiles

Support files for NGCHM-R package

pathway-mapper

An interactive and collaborative graphical curation tool for cancer pathways

readmatrixrcpp

R package wrapped around C++ used to quickly read very large "platform" level matrices from within a ZIP archive

rppaspace

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".

rstudio-ngchm

rstudio with preinstalled NGCHM R library