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Point-and-Click Genomic Data Analysis

Partek Flow is an easy-to-use analysis solution for next generation sequencing data. With just a few clicks, any biologist can build a data analysis pipeline that goes from raw files to meaningful results and publication-quality figures.

Partek Flow can analyze a wide variety of genomic data including:

 

  • DNA-Seq
  • ChIP-Seq
 
The Tools You Need, The Ease You Want

Partek Flow implements the most popular community-developed and Partek-developed bioinformatic tools in a point-and-click interface to make it easy to:

  • Align reads to any reference genome
  • Check sequencing and alignment
  • Quantify gene or transcript counts
  • Normalize counts
  • Identify differentially expressed genes and transcripts
  • Detect alternative splicing of transcripts
  • Perform biological interpretation with GO terms and KEGG pathways
  • Detect variants and copy number changes
  • Filter variants based on functional effect predictions
  • Explore your data with interactive 3D PCA and t-SNE
  • Visualize results with configurable heat maps, dot plots, and violin plots
  • Share results with collaborators
  • And much more!

Want more?
Watch the analysis of an RNA-Seq study in Partek Flow

Partek Flow on a Tablet Device
Intuitive for Biologists

Partek Flow is designed to make it easy for any biologist to analyze their own data.  

  • Point-and-click analysis. No command line or coding experience needed.
  • Easy to try. Get started with pipelines built by Partek scientists and bioinformaticians.
  • Get your figure. Create, customize, and save your own visualizations with just a few clicks.
  • Replicate your results. Automatically generate summary report details and audit trails of your analysis steps.
  • All in one solution. Perform your entire analysis in Partek Flow – no need to move data or use multiple programs.
  • Focus on science, not IT. Data storage, library file management, and computational power are handled by Partek. All you need is a web browser to perform your analysis.
  • Minimize hands-on time. Queue up analyses and receive an email when your results are ready.
  • Analyze with confidence. World-wide, world-class technical support by email or by phone.
Powerful for Bioinformaticists

Partek Flow has the power, flexibility, and advanced tools bioinformaticists and system administrators demand.  

  • Install Partek Flow on a local server, compute cluster, or cloud
  • Configure any parameter in any tool and save custom settings
  • Re-prioritize tasks in the queue
  • Control user access to ensure security and enable collaboration
  • Save, reuse, and share custom pipelines
  • Implement custom tools with user added tasks
  • ​Automated control through our REST API
Powerful for Bioinformaticists

Try out our software for yourself with a free two-week trial.

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System Requirements

Tools in Partek Flow

Alignment

Bowtie
Bowtie 2
BWA
GSNAP
Isaac 2
STAR
TopHat
TopHat 2
TMAP

QA/QC reports

  • Pre-alignment
  • Post-alignment
  • ERCC spike-in
  • Single cell quality

Metagenomics

  • Kraken
  • Alpha and beta diversity

Differential analysis

GSA
Limma trend
ANOVA
Limma voom
DESeq2
Negative binomial
Poisson
Non-parametric ANOVA

Clustering

  • Hierarchical
  • K-means
  • Graph-based

Data exploration

PCA
Heat map
t-SNE
Violin plot
Dot plot
Histograms
Box plot
Chromosome view

Variant calling

Samtools
FreeBayes
LoFreq
Strelka
CNVkit

Variant annotation

SnpEff
VEP
dbSNP
Custom databases

Peak calling

MACS2
TSS plot

Quantification

Partek E/M
Cufflinks