EcoOmicsAnalyst

-- a unified platform for RNAseq annotation and quantification

Input: Raw RNAseq files (.fastq.gz)

Web-based processing (this site)

Data must be less than 30 GB
Register an account (free) and upload your data

Local processing (highly recommended)

Unlimited data size
Install the EOA local version in a docker and process your data locally.
Brief instructions here

Species with good reference transcriptomes

Ultra-fast pseudo-alignment based on Kallisto algorithm

Built-in support for ~20 common organisms
Highly-accurate, transcript-level quantification

Species without reference transcriptomes

Ultra-fast translated alignment using Seq2Fun algorithm

Comprehensive coverage across ~30 taxonomy groups
Gene-level annotation based on ortholog searching

Output

Gene/transcript quantification table;
Gene/transcript annotation table;

Best hits
KEGG orthologs (KOs)
Gene ontologies (GOs)

Visualization of functional profiles

Upload the result tables to ExpressAnalyst for in-depth statistical and functional analysis