WGCNA-shinyApp

A shiny app for WGCNA...

Getting started

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R version: >4.1.1

OS: MacOS > 10.10, Win 7-11, linux must have a graphic interface

# clone this repo to your machine
git clone [email protected]:ShawnWx2019/WGCNA-shinyApp.git WGCNAshiny

cd WGCNAshiny

## Method 1.

Rscript WGCNAbyClick.v1.R

## Method 2. open WGCNAbyClick.v1.R by Rstudio or other IDE you perfer and run this script.

Input data prepare

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datExpr

You cant prepare your datExpr file following the demo data

Data source:

• transcriptomics

  • readcount.

  • expected count

  • normalized readcount (FPKM, RPKM, TPM, CPM)

  • microarray data

• metabolomics

  • peak area.

• proteomics,

  • protein abundance.

• ...

Format:

• Gene/metabolite/protein ID in row and sample ID in column.

• The sample ID should not contain spaces, special symbols, and should not start with numbers.

• DO NOT use pure numbers as gene/metabolite/protein ID.

• Only accepted tab-delimited file, such as .txt or .tsv.

Trait table.

Update

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Jan 21 2023 V0.0.6.230121

• 🍿 + New options of input data format.

• 🍿 + Ceil expected count.

• 🍬 + Progress bar in module detection and module-trait step.

• 🐛 + Modified some inappropriate descriptions.

• ⭐️ + Outlier remove.

• ⭐️ + IterativeWGCNA.

• 🍀 + Export parameter.