Partek Flow

WEBINAR: ChIP-Seq / ATAC-Seq Analysis and Integration with Gene Expression Data
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Partek Flow Logo

Partek® Flow® is a start-to-finish software analysis solution for next generation sequencing data applications. It has an easy-to-use interface, robust statistical algorithms, information-rich visualizations, and cutting edge genomic tools enabling researchers of all skill levels to confidently perform data analysis.

  • All the tools you need to quickly go from raw data files to meaningful results within a single solution
  • Enter the pipeline where it makes sense for you; raw data, aligned reads, count data, or normalized counts
  • Explore data with interactive, customizable, and publication ready  visualizations

Easy to use interface

Point-and-click
for ease of use

Custom scripts

Scripting abilities for advanced users

Cloud icon

Flexible installation options

biologist

Biologist

Don’t feel comfortable using command line? You don’t have to with Partek Flow. Simply point and click your way through your analysis. The data smart interface will present just the relevant options with easy to understand dialogs that explain the process as you go. You have all the power and tools of command line without the hassle.

bioinformatician

Bioinformatician

Do you want the ability to add custom tools and parameters? You can do so using the User Added Task console. Simply write your script, save in a pipeline, and share. Others will be able to execute it on demand. Partek Flow offers all the advanced tools and user controls that bioinformaticians and system admins demand.

enterprise building

Enterprise

Are you an organization with diverse needs and geographic locations? Partek Flow offers the enterprise tools you need to store, manage, and collaboratively analyze large genomic data sets. Whether a cloud, cluster, or server deployment, it provides the elastic computing resources and flexibility to scale with ever-changing needs.

Partek Flow is Built for Ease of Use

 

Partek Flow has the tools, features, and easy-to-use interface that allows all researchers the ability to analyze genomic data.

Easy to use interface

Point-and-click
interface

pipeline

Visually build custom analysis pipelines, then reuse and share

Visualizations

Information rich and
publication ready visualizations

statistical algorithms

Publicly available statistical algorithms with optimized settings

Collaboration

Collaborate without
transferring data

Analysis queue

Queue analysis and
receive email updates

Documentation

Robust and searchable online documentation

Scientific Support

Access to local
scientific experts

Partek Flow has the Advanced Power and Flexibility Organizations Need

 

While Partek Flow has the ease of use that researchers desire, it also has the advanced tools, user administration controls, and flexible scaling abilities that labs and enterprise organizations demand.

Elastic scalingAutomatic, elastic scaling of computing resources

toolsConfigurable and savable parameters in all tools

Cloud iconPrivate/public cloud, server, or compute cluster installation

securityStrong data, security, and user access controls

Custom scripts

Implement scripts in custom pipelines that others can execute

Re-orderable queue

Re-prioritize tasks in the queue

API control

Automated control through REST API

Audit trail

Audit trail that can be reviewed, shared, and downloaded


Tools in Partek Flow

Alignment

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

Differential analysis

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

Metagenomics

  • Kraken
  • Alpha and beta diversity

QA/QC reports

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

Clustering

  • Hierarchical
  • K-means
  • Graph-based

Data exploration

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

Variant calling

Samtools
FreeBayes
LoFreq
Strelka
CNVkit
GATK

Variant annotation

SnpEff
VEP
dbSNP
Custom databases

Peak calling

MACS2
Motif detection
TSS plot

Quantification

Partek E/M
Cufflinks

KEGG authorized service provider logocopyright of Kanehisa Laboratories. Under license from Pathway Solutions Inc.

Kathi GoschePartek Flow