Generated on 2023-02-11 at 16:44.

Snaptron User Guide

Questions can be asked in the project’s Gitter channel.

To cite Snaptron:

Christopher Wilks, Phani Gaddipati, Abhinav Nellore, Ben Langmead; Snaptron: querying splicing patterns across tens of thousands of RNA-seq samples, Bioinformatics, (2017), btx547, https://doi.org/10.1093/bioinformatics/btx547

There is also the snapcount package by Rone Charles in the Landmead group for querying junctions, genes, and exon counts via R/Bioconductor by region (queries Snaptron web services under the hood).

Table of Contents

• Snaptron Compilations and Source Data
  • Snaptron Compilations (instances)
  • Compilation Registry
  • Raw Data and Indices
• Snaptron Client Interface
  • Snaptron Client Quickstart
  • Normalization
• Snaptron Web Services Interface
  • RESTful Web Services Interface Quickstart
  • WSI Forbidden Characters
  • Example WSI Queries
• Snaptron Sample Metadata
  • Sample Metadata Fields
  • Sample Metadata Field Types
• Snaptron Reference Tables
  • Table 1. Query Types
  • Table 2. List of Snaptron Parameters
  • Table 3. Region Query Fields (“regions” parameter)
  • Table 4. Query Filter Fields (“rfilter” parameter)
  • Table 5. Complete list of Snaptron Fields In Return Format
• Mock Graphical User Interface

• Search Page