Access. Skip the data wrangling and tap into a massive library of analysis-ready datasets.
High quality annotations
Tap into over 50k datasets richly annotated with ontology controlled terms for precision bioinformatics.
Pre-processed and ready for analysis
Work with raw sequencing data, pre-processed datasets, or both.
Simple to search
Quickly find datasets of interest using advanced filters or through an ontology-powered semantic search.
Connected Analytics
Automatically import, connect, and launch analyses and workflows.
Control. Design, curate, and manage analyses with ease.
Design pipelines visually
Scaffold multi-branching pipelines from a suite of pre-built workflow tools in a visual way.
Reproducible Pipelines
Customizations and execution details for designed pipelines track every parameter. Build it, test it, version it, and then share it.
Compute on-demand
Launch bioinformatic pipelines on custom machines in the cloud without the setup.
Workflows
Everything you need to turn data into discoveries. Choose for a growing collection of pre-built, configurable workflows to fast track research
Single Cell
Cell Ranger
Set of analysis pipelines that process Chromium single cell data to align reads and generate barcode matrices.
Single Cell
Seurat
R-wrapper of Seurat toolkit. Used to QC scRNA data and perform data exploration of single cell data.
Transcriptomics
DESeq2
Performs differential expression against two groups of samples
Read Alignment
Kallisto
Quantify abundances of transcripts from bulk RNAseq data using pseudo-alignment
Read Alignment
STAR
This workflow maps single-end or paired-end FASTQ reads to a reference genome using the STAR (v2.7.0f) aligner.
Read Alignment
BWA
This workflow maps paired FASTQ reads to a reference genome using the Burrows-Wheeler Aligner.
Functional Genomics
Deep Variant
DeepVariant is a deep learning-based variant caller that takes aligned reads, produces pileup image tensors from them, classifies each tensor using a convolutional neural network.
Functional Genomics
Mutect2
This workflow primarily uses the Genome Analysis Toolkit (GATK v4.1.7.0) to recalibrate the base positions, determine somatic single nucleotide variants and indels via local assembly of haplotypes, and then filter those calls through GATK MuTect2 Filter function.
Functional Genomics
Control FREEC
This workflow takes in an input bam file and runs it through the Control-FREEC workflow to call copy number variations.
Transcriptomics
GSEA
Gene Set Enrichment Analysis is a computational method that determines whether an a priori defined set of genes shows statistically significant, concordant differences between two biological states.
Epigenomics
MACS2
This workflow is used to call peaks in ChIP data files.
Custom Workflow
