RNA-seq QC & Quantification

Run FastQC quality control and transcript-level quantification with Salmon, with explicit input and method limits.

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Beta / Partial
Current online scope: FastQC and single-end Salmon quantification. This page does not currently provide paired-end processing, differential-expression testing, batch correction, or a complete RNA-seq inference pipeline. Server resources are limited (4 CPU cores and 14 GB RAM); FastQC usually completes in minutes, while Salmon may take 10–30 minutes depending on file size. Maximum upload size: 500 MB per file.
Upload FASTQ File

Click to select or drag FASTQ file here

Supported: .fastq, .fq, .fastq.gz, .fq.gz (max 500 MB)

Reference Genomes

Salmon indices must be built before quantification. Click "Build Index" to download transcriptome and build the index (takes 15-30 min, ~3-5 GB disk space).

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