Next-Generation (NG) IEDB Tools
Overview
Background & Design Philosophy
Notable Features
Minimalistic Interface
Integration of Related Tools
Pipelines
Getting Started
Input Sequence Formats
FASTA
Whitespace-Separated
Named Whitespace-Separated
JSON
Prediction Parameters
Peptide Lengths
MHC Alleles
Allele Finder for Class I
Allele Finder for Class II
Prediction Models
Running a Prediction
Returning to an Analysis
Warnings and Errors
Changing Parameters After a Prediction
Tabular Results
Sorting & Filtering Rows
Sorting
Filtering
Table States
Show/Hide Columns
Downloads
Available Tools
B Cell
B Cell - Sequence Input
Methods
Input Data
Parameter Selection
Results
B Cell - Structure Input
Methods
Input Data
Parameter Selection
Results
T Cell
T cell class I
Binding Predictions
Immunogenicity Predictions
Processing Predictions
T cell class II
Binding Predictions
Immunogenicity Predictions
Processing Predictions
Peptide Variant Comparison
Methods
Input Data
Parameter Selection
Results
Patient Harmonic-mean Best Rank (PHBR)
Methods
Input Data
Parameter Selection
Results
Cluster
Methods
Input Data
Parameter Selection
Results
Tabular Results
Cluster Visualization
Interpreting Results
Mutated Peptide Generator
Methods
Input Data
Recommended: Strip Unnecessary Annotations
Recommended: Decomposition and Normalization
Recommended: SNPEff annotation
Parameter Selection
Results
Tabular Results
Interpreting Results
Pepmatch
Methods
Input Data
Parameter Selection
Results
PepX
Methods
Input Data
Parameter Selection
Results
Peptide Table (Gene)
Peptide Gene Summary Table
Peptide Table (Transcript)
Peptide Transcript Summary Table
Pipelines
Building a Pipeline
Passing Filtered Results to Downstream Tool
Pipeline Map
Saving/Sharing Pipelines
Pipeline Steps with Data (
pipeline_id
)
Pipeline Steps without Data (
pipeline_spec_id
)
Notes on the Pipeline Lifecycle
Example Pipelines
One-Step Pipeline
Two-Step Pipeline
Three-Step Pipeline
API usage
Typical Workflow
Core endpoints
/pipeline
POST
for Submitting Predictions
Retrieve All Possible Parameters from Each Tool
Usage Examples
/pipeline
GET
for Retrieving Pipeline Details
/stage
GET
for Retrieving Stage Information
/results
GET
for Retrieving Stage Results
Swagger Documentation
Usage
Request with Parameters
Troubleshooting
Why does my prediction consistently fail?
What are the input size limits?
How do I get more personalized support?
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Next-Generation (NG) IEDB Tools
Available Tools
Available Tools
B Cell
B Cell - Sequence Input
B Cell - Structure Input
T Cell
T cell class I
T cell class II
Peptide Variant Comparison
Patient Harmonic-mean Best Rank (PHBR)
Cluster
Methods
Input Data
Parameter Selection
Results
Mutated Peptide Generator
Methods
Input Data
Parameter Selection
Results
Pepmatch
Methods
Input Data
Parameter Selection
Results
PepX
Methods
Input Data
Parameter Selection
Results