PathLay
Welcome to PathLay’s documentation!
Features
Requirements
For Building the Docker Image (Recommended)
For the Apache Server Installation
Installation
Installation on Linux
Installation using Docker (Recommended)
Installation with .deb package
Apache Server Installation
How to run
Run PathLay as network server with Docker
Run PathLay as local server with Docker (localhost)
Usage
Account Managing
Register a New Account
Login to an Existing Account
Experiment Package
Configuration File
Datasets Files
Supported IDs
Database Configuration
Organism Selection
Interaction Files
Pathway Files
Alternative installation
Home Manager
Creating an Experiment Package
Adding a new Experiment Package
Uploading a new Experiment Package
Editing an Experiment Package
Edit Experiment’s General Information
Configure a Dataset
Gene Ontologies
Downloading an Experiment Package
Configuration Page
Maps Databases
Data Selection
Configuring Filters for a Dataset
Filtering Options
ID Preservation
Transcription Factors
Transcription Factors ID Preservation
Non Differentially Expressed IDs
Loading Non Differentially Expressed IDs from TFs
Maps Restriction Procedure
Pooling
Intersect
Pathway Explorer
Pathway Navigation
Main Menu
Highlighting Feature
The Clipboard
The Selectors Section
Select by IDs
Select by Agreement
Settings
Transparency and Size
Screenshot
Indicators
Legend and Explanation
Drawing Rationale
Gene/Protein Circuit
Single Gene/Protein
Multiple Genes/Proteins Circuit
miRNAs Circuit
Transcription Factors Circuit
Methylation Circuit
Chromatin Status Circuit
License
Support
Contribute
PathLay
Usage
Home Manager
Creating an Experiment Package
Adding a new Experiment Package
View page source
Adding a new Experiment Package
To create an Experiment Package from scratch the first thing to do is to click the “Add New” button.
