Genome Structure Annotation Using Trinity and PASA
Brian Haas edited this page Nov 18, 2016
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1 revision
The Trinity-reconstructed transcripts can be used to annotate genomes using PASA. Documentation for this is provided on the PASA website under Build a Comprehensive Transcriptome Database Using Genome-guided and De novo RNA-Seq Assembly at the PASA web portal.
- Trinity Wiki Home
- Installing Trinity
- Running Trinity
- Trinity process and resource monitoring
- Output of Trinity Assembly
- Assembly Quality Assessment
- Downstream Analyses
- Miscellaneous additional functionality that may be of interest
- Contributing code
- Trinity Tidbits
- Frequently Asked Questions (FAQ)
- There are too many transcripts! What do I do?
- How to minimize RAM usage
- How do I use reads I downloaded from SRA
- How do I identify the specific reads that were incorporated into the transcript assemblies?
- How can I perform cross-species analysis?
- How do I combine PE and SE reads?
- How can I run this in parallel on a computing grid?
- Computing and Time requirements
- Errors during Trinity run
- Killing Trinity
- Contact us