batch_indicator

example_batchqc_data

signature_data


This data consists of three batches and ten different conditions 
corresponding to control and nine different pathways<p></p><p>This data consists of three batches and ten different conditions 
corresponding to control and nine different pathways
</p>

datasets

Sequencing and microarray samples often are collected or
processed in multiple batches or at different times. This often
produces technical biases that can lead to incorrect results in
the downstream analysis. BatchQC is a software tool that
streamlines batch preprocessing and evaluation by providing
interactive diagnostics, visualizations, and statistical
analyses to explore the extent to which batch variation impacts
the data. BatchQC diagnostics help determine whether batch
adjustment needs to be done, and how correction should be
applied before proceeding with a downstream analysis. Moreover,
BatchQC interactively applies multiple common batch effect
approaches to the data, and the user can quickly see the
benefits of each method. BatchQC is developed as a Shiny App.
The output is organized into multiple tabs, and each tab
features an important part of the batch effect analysis and
visualization of the data. The BatchQC interface has the
following analysis groups: Summary, Differential Expression,
Median Correlations, Heatmaps, Circular Dendrogram, PCA
Analysis, Shape, ComBat and SVA.

Solaiappan Manimaran

BatchQC

Batch Effects Quality Control Software

example_batchqc_data function

A data frame with 89 rows and 2 variables:
<dl>
    <dt>V1</dt><dd>Batch Indicator</dd> <dt>V2</dt><dd>Condition (Pathway) Indicator</dd> </dl>

Format

GEO accession: GSE73628 GEO accession: GSE73628

Source


This data consists of three batches and ten different conditions 
corresponding to control and nine different pathways

This data consists of three batches and ten different conditions 
corresponding to control and nine different pathways


example_batchqc_data: Batch and Condition indicator for signature data captured when activating different growth pathway genes in human mammary epithelial cells.

Description

Usage

Arguments

Value

Format

Source