Software

A Qt compiled software for WGCNA analyses -- qtWGCNA

Currently, qtWGCNA (v 1.0) is under its first version development. As showed in the below figure, the framework of qtWGCNA relies on a Qt-based fore-end and the back-end python script of iterativeWGCNA [1].

1. Quick Start

qtWGCNA is developed as an interface of iterativeWGCNA python script, to run qtWGCNA, we can use WSL of Windows 10 (can be downloaded and installed from Microsoft store) or run command './qtWGCNA' on a linux server terminal. We recommend downloading WSL from Microsoft store in Win 10 system because it is more light weight and no requirement for complicated coding skills.

After WSL or server deployment, qtWGCNA required miniconda environment to install iterativeWGCNA by running commandline 'conda install -c conda-forge iterativewgcna' (https://anaconda.org/conda-forge/iterativewgcna). More information about how to install Miniconda, please click me.

Finally, by uoload the gene expression file (file format info) with 'browse' button and set required parameters, we are able to run iterativeWGCNA at the back-end and wait for the processing to be done!

2. Interface Options

Currently, qtWGCNA is now allowed to accept all arguments of valid for the WGCNA blockwiseModules R function (blockwiseModules help document). More information about the customized parameters, e.g. soft power or network type, please refer to WGCNA parameters.

3. Results and logs

A main text and log result of qtWGCNA was showed as below, which indicates how much connected of all the co-expressed genes in well-divided WGCNA modules.

A main figure result of qtWGCNA was showed as below, which indicates how many genes are jointly co-expressed.

More information about the output files, please refer to iterativeWGCNA output files

4. Source Code

The source code of qtWGCNA can be compiled by Qt creator.

qtWGCNA.h

qtWGCNA.cpp

#include "qtWGCNA.h"
#include "ui_qtWGCNA.h"
#include <QDebug>
#include <QFileDialog>
#include <QMessageBox>
#include <QProcess>
#include <QDesktopWidget>
#include <QProgressDialog>
#include <QtConcurrent>
using namespace QtConcurrent;

qtWGCNA::qtWGCNA(QWidget *parent) : QWidget(parent),ui(new Ui::qtWGCNA)
{
    ui->setupUi(this);

connect(ui->line_exp, SIGNAL(textChanged(QString)), this, SLOT(checkLineEdits_start()));
    connect(ui->line_work_dir, SIGNAL(textChanged(QString)), this, SLOT(checkLineEdits_start()));

}

qtWGCNA::~qtWGCNA()
{
    delete ui;
}

void qtWGCNA::checkLineEdits_start()
{
    bool ok = !ui->line_exp->text().isEmpty()
    && !ui->line_work_dir->text().isEmpty();

if(ok){
        ui->start->setEnabled(true);
    }

}

void qtWGCNA::on_start_clicked()
{
    //    Basic:
    QString exp=ui->line_exp->text();
    QString work_dir=ui->line_work_dir->text();
    QString blockwiseModules_para=ui->line_blockwiseModules_para->text();
    if(blockwiseModules_para!=""){blockwiseModules_para = "-p "+blockwiseModules_para;}else {blockwiseModules_para = "";}

//  Checkbox:
    QString enableWGCNAThreads = ui->checkBox_enableWGCNAThreads->text();
    if(ui->checkBox_enableWGCNAThreads->isChecked()){enableWGCNAThreads = "--enableWGCNAThreads";}else {enableWGCNAThreads = "";}

QString skipSaveBlocks = ui->checkBox_skipSaveBlocks->text();
    if(ui->checkBox_skipSaveBlocks->isChecked()){skipSaveBlocks = "--skipSaveBlocks";}else {skipSaveBlocks = "";}

QString gzipTOMs = ui->checkBox_gzipTOMs->text();
    if(ui->checkBox_gzipTOMs->isChecked()){gzipTOMs = "--gzipTOMs";}else {gzipTOMs = "";}

qDebug()<<"Input exp file <bed>:"<<exp;
 qDebug()<<"ouput work directory <bed>:"<<work_dir;

QStringList qtWGCNA_command;
 qtWGCNA_command<<"iterativeWGCNA"
 <<"-i"
 <<exp
 <<"-o"
 <<work_dir
 <<enableWGCNAThreads
 <<skipSaveBlocks
 <<gzipTOMs
 <<blockwiseModules_para;

QString qtWGCNA_command_join = qtWGCNA_command.join(" ");
 qDebug()<<"qtWGCNA command:"<<qtWGCNA_command_join;

QString qPath("qtWGCNA_config.txt");
 QFile qFile(qPath);
 if (qFile.open(QIODevice::WriteOnly)) {
 QTextStream out(&qFile); out << qtWGCNA_command_join;
 qFile.close();
 }

qtWGCNA_command_join = "\""+qtWGCNA_command_join+"\"";
 qDebug()<<"run qtWGCNA.sh command: "<<qtWGCNA_command_join;

QEventLoop loop;
     QProgressDialog dialog;
     dialog.setWindowModality(Qt::WindowModal);
     dialog.setWindowTitle("qtWGCNA: for seeking the reverse transcriptase stop sites");
     dialog.setWindowIcon(QIcon(":/images/qtWGCNAlogo.png"));
     dialog.setMinimumWidth(800);
     dialog.setRange(0,0);
     dialog.setLabelText(QString("qtWGCNA ROC mode is running (%1 threads)...").arg(QThread::idealThreadCount()));
     dialog.show();

QProcess p;
     p.start("bash "+QCoreApplication::applicationDirPath()+"/qtWGCNA.sh "+"-c"+qtWGCNA_command_join+" -d "+"\""+work_dir+"\"");
     connect(&p,SIGNAL(finished(int,QProcess::ExitStatus)),&loop,SLOT(quit()));
     loop.exec();
     QString getStr=QString(p.readAllStandardOutput());
     ui->textEdit->setText(getStr);
     QMessageBox::information(this,"qtWGCNA log: \n","A qtWGCNA job is done!");

QString getStr_Error=QString(p.readAllStandardError());
     if(getStr_Error!=""){
         QMessageBox::information(this,"qtWGCNA Error: \n",getStr_Error);
     }

}

void qtWGCNA::on_browse_exp_clicked()
{
    QFileDialog dialog(this);
    dialog.setAcceptMode(QFileDialog::AcceptSave);
    QString exp = dialog.getOpenFileName(this,tr("Locate gene expression file"),"txt",tr("Find gene expression file (*.txt)"));

if (!exp.isEmpty()) {
        ui->line_exp->setText(exp);
    }
}

void qtWGCNA::on_browse_work_dir_clicked()
{
    QFileDialog dialog(this);
    QString out_dir = dialog.getExistingDirectory(this,
                                tr("Find directory"), QDir::currentPath());

if (!out_dir.isEmpty()) {
            ui->line_work_dir->setText(out_dir);
        }
}

void qtWGCNA::on_config_clicked()
{
        QString fileName = QFileDialog::getOpenFileName(this,tr("Open qtWGCNA config text"),"txt",tr("config text(qtWGCNA_config.txt)"));
        if (!fileName.isEmpty())
            loadFile(fileName);
}

void qtWGCNA::loadFile(const QString &fileName)
{
    QFile file(fileName);
    if (!file.open(QFile::ReadOnly | QFile::Text)) {
        QMessageBox::warning(this, tr("Application"),
                             tr("Cannot read file %1:\n%2.")
                             .arg(QDir::toNativeSeparators(fileName), file.errorString()));
        return;
    }

QTextStream in(&file);
    QString config_text=in.readAll();
    QStringList config_list = config_text.split(' ');
    ui->line_exp->setText(config_list[2]);
    ui->line_work_dir->setText(config_list[4]);

if(config_list[5]!=""){
        ui->checkBox_enableWGCNAThreads->setChecked(true);
    }

if(config_list[6]!=""){
        ui->checkBox_skipSaveBlocks->setChecked(true);
    }

if(config_list[7]!=""){
        ui->checkBox_gzipTOMs->setChecked(true);
    }

if(config_list[8]!=""){
        ui->line_blockwiseModules_para->setText(config_list[9]);
    }

}

qtWGCNA.ui

<?xml version="1.0" encoding="UTF-8"?>
<ui version="4.0">
 <class>qtWGCNA</class>
 <widget class="QWidget" name="qtWGCNA">
 <property name="geometry">
 <rect>
 <x>0</x>
 <y>0</y>
 <width>800</width>
 <height>564</height>
 </rect>
 </property>
 <property name="windowTitle">
 <string>qtWGCNA</string>
 </property>
 <layout class="QGridLayout" name="gridLayout_4">
 <item row="0" column="0">
 <layout class="QGridLayout" name="gridLayout">
 <property name="horizontalSpacing">
 <number>6</number>
 </property>
 <item row="1" column="0">
 <widget class="QTextEdit" name="textEdit">
 <property name="font">
 
 <family>Arial [TMC ]</family>
 <weight>75</weight>
 <italic>true</italic>
 <bold>true</bold>
 
 </property>
 <property name="html">
 <string><!DOCTYPE HTML PUBLIC "-//W3C//DTD HTML 4.0//EN" "http://www.w3.org/TR/REC-html40/strict.dtd">
<html><head><meta name="qrichtext" content="1" /><style type="text/css">
p, li { white-space: pre-wrap; }
</style></head><body style=" font-family:'Arial [TMC ]'; font-size:9pt; font-weight:600; font-style:italic;">
Citation: 
iterativeWGCNA: iterative refinement to improve module detection from WGCNA co-expression networks
Emily Greenfest-Allen, Jean-Philippe Cartailler, Mark A. Magnuson, Christian J. Stoeckert Jr.
bioRxiv 234062; doi: https://doi.org/10.1101/234062
 
Usage: iterativeWGCNA [-h] -i &lt;gene expression file&gt; [-o &lt;output dir&gt;] [-v]
 [--debug] [-p &lt;param list&gt;] [--enableWGCNAThreads]
 [--skipSaveBlocks] [--gzipTOMs] [-f &lt;cut height&gt;]
<p style="-qt-paragraph-type:empty; margin-top:0px; margin-bottom:0px; margin-left:0px; margin-right:0px; -qt-block-indent:0; text-indent:0px; font-family:'Arial'; font-size:10pt; font-weight:400; color:#000000;"> 
perform iterativeWGCNA analysis
<p style="-qt-paragraph-type:empty; margin-top:0px; margin-bottom:0px; margin-left:0px; margin-right:0px; -qt-block-indent:0; text-indent:0px; font-family:'Arial'; font-size:10pt; font-weight:400; color:#000000;"> 
optional arguments:
 -h, --help show this help message and exit
 -i &lt;gene expression file&gt;, --inputFile &lt;gene expression file&gt;
 full path to input gene expression file; if full path is not provided,
 assumes the file is in the working directory
 ;see below for input file format
 -o &lt;output dir&gt;, --workingDir &lt;output dir&gt;
 R working directory; where output will be saved
 -v, --verbose print status messages
 --debug print debugging messages
 -p &lt;param list&gt;, --wgcnaParameters &lt;param list&gt;
 comma separated list of parameters to be passed to WGCNA's blockwiseModules function
 e.g., power=6,randomSeed=1234875
 see WGCNA manual &amp; more info below
 --enableWGCNAThreads enable WGCNA to use threading;
 see WGCNA manual
 --skipSaveBlocks do not save WGCNA blockwise modules for each iteration;
 NOTE: without blocks summary graphics cannot be generated.
 Also will not saveTOMs.
 --gzipTOMs gzip TOM RData files
 -f &lt;cut height&gt;, --finalMergeCutHeight &lt;cut height&gt;
 cut height for final merge (after iterations are assembled)
<p style="-qt-paragraph-type:empty; margin-top:0px; margin-bottom:0px; margin-left:0px; margin-right:0px; -qt-block-indent:0; text-indent:0px; font-family:'Arial'; font-size:10pt; font-weight:400; color:#000000;"> 
------------------------------------------------------
Input File Format
------------------------------------------------------
iterativeWGCNA expects a tab-delimited text file containing
gene expression data arranged such that there is one
row per gene and one column per sample. The first column
should contain unique gene identifiers. For example:
<p style="-qt-paragraph-type:empty; margin-top:0px; margin-bottom:0px; margin-left:0px; margin-right:0px; -qt-block-indent:0; text-indent:0px; font-family:'Arial'; font-size:10pt; font-weight:400; color:#000000;"> 
GENE Sample1 Sample2 Sample3
Gata1 500 715 1000
Phtf2 60 1000 1600
<p style="-qt-paragraph-type:empty; margin-top:0px; margin-bottom:0px; margin-left:0px; margin-right:0px; -qt-block-indent:0; text-indent:0px; font-family:'Arial'; font-size:10pt; font-weight:400; color:#000000;"> 
------------------------------------------------------
WGCNA Parameters
------------------------------------------------------
iterativeWGCNA can accept any parameter valid for the WGCNA
blockwiseModules function.
<p style="-qt-paragraph-type:empty; margin-top:0px; margin-bottom:0px; margin-left:0px; margin-right:0px; -qt-block-indent:0; text-indent:0px; font-family:'Arial'; font-size:10pt; font-weight:400; color:#000000;"> 
See http://www.inside-r.org/packages/cran/wgcna/docs/blockwiseModules
<p style="-qt-paragraph-type:empty; margin-top:0px; margin-bottom:0px; margin-left:0px; margin-right:0px; -qt-block-indent:0; text-indent:0px; font-family:'Arial'; font-size:10pt; font-weight:400; color:#000000;"> 
To specify these parameters use the --wgcnaParameters flag followed by
a comma separated list of parameter=value pairs. For example:
<p style="-qt-paragraph-type:empty; margin-top:0px; margin-bottom:0px; margin-left:0px; margin-right:0px; -qt-block-indent:0; text-indent:0px; font-family:'Arial'; font-size:10pt; font-weight:400; color:#000000;"> 
--wgcnaParameters maxBlockSize=5000,corType=bicor,power=10
<p style="-qt-paragraph-type:empty; margin-top:0px; margin-bottom:0px; margin-left:0px; margin-right:0px; -qt-block-indent:0; text-indent:0px; font-family:'Arial'; font-size:10pt; font-weight:400; color:#000000;"> 
sets the maximum block size to 5000 genes,
the correlation type to the biweight correlation,
and the power-law scaling factor (beta) to 10
<p style="-qt-paragraph-type:empty; margin-top:0px; margin-bottom:0px; margin-left:0px; margin-right:0px; -qt-block-indent:0; text-indent:0px; font-family:'Arial'; font-size:10pt; font-weight:400; color:#000000;"> 
If parameters are not specified, iterativeWGCNA uses the default WGCNA settings,
except for the following:
<p style="-qt-paragraph-type:empty; margin-top:0px; margin-bottom:0px; margin-left:0px; margin-right:0px; -qt-block-indent:0; text-indent:0px; font-family:'Arial'; font-size:10pt; font-weight:400; color:#000000;"> 
minModuleSize=20
saveTOMs=FALSE
minKMEtoStay=0.8
minCoreKME=0.8
networkType=signed
numericLabels=TRUE
<p style="-qt-paragraph-type:empty; margin-top:0px; margin-bottom:0px; margin-left:0px; margin-right:0px; -qt-block-indent:0; text-indent:0px; font-family:'Arial'; font-size:10pt; font-weight:400; color:#000000;"> </body></html></string>
 </property>
 </widget>
 </item>
 <item row="2" column="0">
 <layout class="QHBoxLayout" name="horizontalLayout_all">
 <item>
 <layout class="QVBoxLayout" name="verticalLayout_basic">
 <item>
 <widget class="QGroupBox" name="Basic">
 <property name="font">
 
 <family>Arial [TMC ]</family>
 <pointsize>10</pointsize>
 <weight>75</weight>
 <italic>true</italic>
 <bold>true</bold>
 
 </property>
 <property name="title">
 <string>iterativeWGCCCNA control panel</string>
 </property>
 <layout class="QVBoxLayout" name="verticalLayout_7">
 <item>
 <layout class="QVBoxLayout" name="verticalLayout_basic_opt">
 <item>
 <layout class="QVBoxLayout" name="verticalLayout_basic_2">
 <item>
 <widget class="QLabel" name="label_input">
 <property name="font">
 
 <family>Arial [TMC ]</family>
 <pointsize>10</pointsize>
 <weight>75</weight>
 <italic>true</italic>
 <bold>true</bold>
 
 </property>
 <property name="text">
 <string><html><head/><body>*gene expression file &lt;txt&gt;</body></html></string>
 </property>
 </widget>
 </item>
 <item>
 <layout class="QHBoxLayout" name="horizontalLayout_input">
 <item>
 <widget class="QLineEdit" name="line_exp">
 <property name="font">
 
 <family>Arial [TMC ]</family>
 <pointsize>10</pointsize>
 <weight>75</weight>
 <italic>true</italic>
 <bold>true</bold>
 
 </property>
 <property name="toolTip">
 <string><!DOCTYPE HTML PUBLIC "-//W3C//DTD HTML 4.0//EN" "http://www.w3.org/TR/REC-html40/strict.dtd">
<html><head><meta name="qrichtext" content="1" /><style type="text/css">
p, li { white-space: pre-wrap; }
</style></head><body style=" font-family:'Arial [TMC ]'; font-size:10pt; font-weight:600; font-style:italic;">
samples &lt;bam&gt; not treated with the carbodiimide N-cyclohexyl-N0-(2 morpholinoethyl)carbodiimide methop-toluenesulfonate (CMC) or other chemical.</body></html></string>
 </property>
 <property name="text">
 <string/>
 </property>
 </widget>
 </item>
 <item>
 <widget class="QPushButton" name="browse_exp">
 <property name="font">
 
 <family>Arial [TMC ]</family>
 <pointsize>10</pointsize>
 <weight>75</weight>
 <italic>true</italic>
 <bold>true</bold>
 
 </property>
 <property name="toolTip">
 <string><!DOCTYPE HTML PUBLIC "-//W3C//DTD HTML 4.0//EN" "http://www.w3.org/TR/REC-html40/strict.dtd">
<html><head><meta name="qrichtext" content="1" /><style type="text/css">
p, li { white-space: pre-wrap; }
</style></head><body style=" font-family:'Arial [TMC ]'; font-size:10pt; font-weight:600; font-style:italic;">
browse input file in bam format</body></html></string>
 </property>
 <property name="text">
 <string>Browse...</string>
 </property>
 </widget>
 </item>
 </layout>
 </item>
 <item>
 <widget class="QLabel" name="label_treatment">
 <property name="font">
 
 <family>Arial [TMC ]</family>
 <pointsize>10</pointsize>
 <weight>75</weight>
 <italic>true</italic>
 <bold>true</bold>
 
 </property>
 <property name="text">
 <string><html><head/><body>*output dir &lt;dir&gt;</body></html></string>
 </property>
 </widget>
 </item>
 <item>
 <layout class="QHBoxLayout" name="horizontalLayout_treatment">
 <item>
 <widget class="QLineEdit" name="line_work_dir">
 <property name="font">
 
 <family>Arial [TMC ]</family>
 <pointsize>10</pointsize>
 <weight>75</weight>
 <italic>true</italic>
 <bold>true</bold>
 
 </property>
 <property name="toolTip">
 <string><!DOCTYPE HTML PUBLIC "-//W3C//DTD HTML 4.0//EN" "http://www.w3.org/TR/REC-html40/strict.dtd">
<html><head><meta name="qrichtext" content="1" /><style type="text/css">
p, li { white-space: pre-wrap; }
</style></head><body style=" font-family:'Arial [TMC ]'; font-size:10pt; font-weight:600; font-style:italic;">
samples &lt;bam&gt; treated with the carbodiimide N-cyclohexyl-N0-(2 morpholinoethyl)carbodiimide methop-toluenesulfonate (CMC) or other chemical.</body></html></string>
 </property>
 <property name="text">
 <string/>
 </property>
 </widget>
 </item>
 <item>
 <widget class="QPushButton" name="browse_work_dir">
 <property name="font">
 
 <family>Arial [TMC ]</family>
 <pointsize>10</pointsize>
 <weight>75</weight>
 <italic>true</italic>
 <bold>true</bold>
 
 </property>
 <property name="toolTip">
 <string><!DOCTYPE HTML PUBLIC "-//W3C//DTD HTML 4.0//EN" "http://www.w3.org/TR/REC-html40/strict.dtd">
<html><head><meta name="qrichtext" content="1" /><style type="text/css">
p, li { white-space: pre-wrap; }
</style></head><body style=" font-family:'Arial [TMC ]'; font-size:10pt; font-weight:600; font-style:italic;">
browse treatment file in bam format</body></html></string>
 </property>
 <property name="text">
 <string>Browse...</string>
 </property>
 </widget>
 </item>
 </layout>
 </item>
 <item>
 <widget class="QGroupBox" name="groupBox">
 <property name="title">
 <string>basic parameters</string>
 </property>
 <layout class="QGridLayout" name="gridLayout_3">
 <item row="2" column="0">
 <layout class="QGridLayout" name="gridLayout_2">
 <item row="0" column="0">
 <widget class="QCheckBox" name="checkBox_enableWGCNAThreads">
 <property name="text">
 <string>enableWGCNAThreads</string>
 </property>
 </widget>
 </item>
 <item row="0" column="1">
 <widget class="QCheckBox" name="checkBox_skipSaveBlocks">
 <property name="text">
 <string>skipSaveBlocks</string>
 </property>
 </widget>
 </item>
 <item row="0" column="2">
 <widget class="QCheckBox" name="checkBox_gzipTOMs">
 <property name="text">
 <string>gzipTOMs</string>
 </property>
 </widget>
 </item>
 </layout>
 </item>
 <item row="1" column="0">
 <widget class="QLineEdit" name="line_blockwiseModules_para"/>
 </item>
 <item row="0" column="0">
 <widget class="QLabel" name="label">
 <property name="text">
 <string>blockwiseModules arguments</string>
 </property>
 </widget>
 </item>
 </layout>
 </widget>
 </item>
 <item>
 <layout class="QHBoxLayout" name="horizontalLayout">
 <item>
 <widget class="QPushButton" name="config">
 <property name="minimumSize">
 <size>
 <width>0</width>
 <height>40</height>
 </size>
 </property>
 <property name="font">
 
 <family>Arial [TMC ]</family>
 <pointsize>15</pointsize>
 <weight>75</weight>
 <italic>true</italic>
 <bold>true</bold>
 
 </property>
 <property name="toolTip">
 <string><!DOCTYPE HTML PUBLIC "-//W3C//DTD HTML 4.0//EN" "http://www.w3.org/TR/REC-html40/strict.dtd">
<html><head><meta name="qrichtext" content="1" /><style type="text/css">
p, li { white-space: pre-wrap; }
</style></head><body style=" font-family:'Arial [TMC ]'; font-size:15pt; font-weight:600; font-style:italic;">
get rtsSeeker arguments from rtsSeeker_config.txt</body></html></string>
 </property>
 <property name="text">
 <string>CONFIG</string>
 </property>
 </widget>
 </item>
 <item>
 <widget class="QPushButton" name="start">
 <property name="enabled">
 <bool>false</bool>
 </property>
 <property name="minimumSize">
 <size>
 <width>0</width>
 <height>40</height>
 </size>
 </property>
 <property name="font">
 
 <family>Arial [TMC ]</family>
 <pointsize>15</pointsize>
 <weight>75</weight>
 <italic>true</italic>
 <bold>true</bold>
 
 </property>
 <property name="toolTip">
 <string><!DOCTYPE HTML PUBLIC "-//W3C//DTD HTML 4.0//EN" "http://www.w3.org/TR/REC-html40/strict.dtd">
<html><head><meta name="qrichtext" content="1" /><style type="text/css">
p, li { white-space: pre-wrap; }
</style></head><body style=" font-family:'Arial [TMC ]'; font-size:15pt; font-weight:600; font-style:italic;">
start running rtsSeeker</body></html></string>
 </property>
 <property name="text">
 <string>START</string>
 </property>
 </widget>
 </item>
 </layout>
 </item>
 </layout>
 </item>
 </layout>
 </item>
 </layout>
 </widget>
 </item>
 </layout>
 </item>
 </layout>
 </item>
 <item row="0" column="0">
 <widget class="QLabel" name="label_rtsSeeker">
 <property name="maximumSize">
 <size>
 <width>16777215</width>
 <height>30</height>
 </size>
 </property>
 <property name="font">
 
 <family>Arial [TMC ]</family>
 <pointsize>20</pointsize>
 <weight>75</weight>
 <italic>true</italic>
 <bold>true</bold>
 
 </property>
 <property name="text">
 <string>qtWGCNA</string>
 </property>
 </widget>
 </item>
 </layout>
 </item>
 </layout>
 </widget>
 <layoutdefault spacing="6" margin="11"/>
 <resources/>
 <connections/>
</ui>

qtWGCNA.sh

5. Github link

qtWGCNA is now available in github: Click me to download qtWGCNA release files or raw project files. A installation-ready copy of our code is named as 'build-qtWGCNA-Desktop-Release'

Reference

[1] iterativeWGCNA: iterative refinement to improve module detection from WGCNA co-expression networks Emily Greenfest-Allen, Jean-Philippe Cartailler, Mark A. Magnuson, Christian J. Stoeckert Jr. bioRxiv 234062; doi: https://doi.org/10.1101/234062.