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Workbench plugins

PluginManualSupported onDownloadDeveloper

Additional Alignments

Perform alignments with ClustalO, ClustalW and MUSCLE

CLC Drug Discovery Workbench CLC Sequence Viewer CLC Main Workbench CLC Genomics Workbench

Advanced Peak Shape Tools Plugin (Beta)

peak finding using shape information

CLC Genomics Workbench

Annotate with GFF file

Using this plug-in it is possible to annotate a sequence from list of annotations found in a GFF file
Located in the Toolbox.

CLC Main Workbench CLC Genomics Workbench

Batch Rename

Rename files in batch by adding a prefix or a number.

CLC Cancer Research Workbench CLC Drug Discovery Workbench CLC Sequence Viewer CLC Main Workbench CLC Genomics Workbench

Biobase Genome Trax Annotate

Create tracks with various data from Biobase Genome Trax

CLC Cancer Research Workbench CLC Genomics Workbench

Biobase Genome Trax Download

Create tracks with various data from Biobase Genome Trax

CLC Cancer Research Workbench CLC Genomics Workbench

Blast2GO PRO

Blast2GO PRO is an all-in-one tool for functional annotation of (novel) sequences and the analysis of annotation data.

CLC Cancer Research Workbench CLC Main Workbench CLC Genomics Workbench

Blast2GO Viewer

Blast2GO Viewer is a free plug-in to view Blast2GO project file generated with the commercial Blast2GO PRO plug-in.

CLC Cancer Research Workbench CLC Main Workbench CLC Genomics Workbench

Bookmark Navigator

With this extension you can bookmark elements in the Navigation Area.

CLC Drug Discovery Workbench CLC Sequence Viewer CLC Main Workbench CLC Genomics Workbench

Bootstrapped ROC

Statistical analysis of differential expression.

CLC Cancer Research Workbench CLC Main Workbench CLC Genomics Workbench

CLC MLST Module

MLST Module makes it easy and fast to do MultiLocus Sequence Typing.

CLC Main Workbench CLC Genomics Workbench

CLC Microbial Genome Finishing Module

Various tools for genome finishing aimed to close and produce high quality genomes in sequencing projects.

CLC Genomics Workbench

CLC Workbench Client Plugin

Client plugin for connecting to a CLC Genomics Server, CLC Science Server, CLC Drug Discovery Server or Bioinformatics Database. The plug-in also includes Grid Engine Integration.

CLC Cancer Research Workbench CLC Drug Discovery Workbench CLC Main Workbench CLC Genomics Workbench

Convert Variant Tracks

This plugin lets you convert old variant tracks (created with Genomics Workbench 6.0.X and earlier) to new variant tracks as they are represented in Genomics Workbench 6.5.

CLC Genomics Workbench

Copy Number Variant Detection (Beta)

Detects copy number variations

CLC Cancer Research Workbench

Duplicate Mapped Reads Removal (Beta)

Remove duplicate reads from mapping data.

CLC Genomics Workbench

Duplicate Reads Removal (Beta)

Detects and removes duplicate reads

CLC Genomics Workbench

Ingenuity Pathway Analysis

Ingenuity Pathway Analysis plug-in

CLC Genomics Workbench

KLAST Plugin (12 cores)

KLAST is a fast, accurate and NGS scalable bank-to-bank sequence similarity search tool providing significant accelerations of the Blast suite of algorithms. Relying on unique software architecture, KLAST takes full advantage of recent multi-core personal computers without requiring any additional hardware devices.

CLC Cancer Research Workbench CLC Main Workbench CLC Genomics Workbench

KLAST Plugin (4 cores)

KLAST is a fast, accurate and NGS scalable bank-to-bank sequence similarity search tool providing significant accelerations of the Blast suite of algorithms. Relying on unique software architecture, KLAST takes full advantage of recent multi-core personal computers without requiring any additional hardware devices.

CLC Cancer Research Workbench CLC Main Workbench CLC Genomics Workbench

KLAST Plugin (8 cores)

KLAST is a fast, accurate and NGS scalable bank-to-bank sequence similarity search tool providing significant accelerations of the Blast suite of algorithms. Relying on unique software architecture, KLAST takes full advantage of recent multi-core personal computers without requiring any additional hardware devices.

CLC Cancer Research Workbench CLC Main Workbench CLC Genomics Workbench

Map Reads to Reference Affine (Beta)

A fast and memory efficient read mapper with affine gap cost

CLC Cancer Research Workbench CLC Genomics Workbench

Metadata Import (Beta)

Import metadata from a tabular file, or associate data already imported with metadata from a tabular file.

CLC Main Workbench CLC Genomics Workbench

PPfold

Parallel pfold implementation

CLC Drug Discovery Workbench CLC Sequence Viewer CLC Main Workbench CLC Genomics Workbench

Paracel BLAST Evaluation

Paracel BLAST Evaluation

CLC Drug Discovery Workbench CLC Main Workbench CLC Genomics Workbench

QIAGEN GeneRead Panel Analysis Plugin

The QIAGEN GeneRead panel analysis plugin

CLC Cancer Research Workbench

RNA-Seq Legacy

Legacy version of the RNA-seq algorithm.

CLC Genomics Workbench

Rapid Neighbour-Joining

A fast and memory efficient implementation of the Neighbour-Joining method with fast distance estimation.

CLC Cancer Research Workbench CLC Drug Discovery Workbench CLC Sequence Viewer CLC Main Workbench CLC Genomics Workbench

Read Mapping Legacy

Legacy version of the CLC bio Read Mapper algorithm

CLC Genomics Workbench

Recent Items Navigator

With this extension you can keep track of recently used items in the Navigator Area.

CLC Drug Discovery Workbench CLC Sequence Viewer CLC Main Workbench CLC Genomics Workbench

Sequence Reader

The sequence reader can be used to read aloud a part of a sequence.

CLC Main Workbench CLC Genomics Workbench

SignalP

Integrated signal peptide prediction using SignalP 4.1 at http://www.cbs.dtu.dk/services/SignalP.
(Requires an Internet connection).

CLC Drug Discovery Workbench CLC Main Workbench CLC Genomics Workbench

TMHMM

Integrated transmembrane helix prediction using TMHMM at http://www.cbs.dtu.dk/services/TMHMM.
(Requires an Internet connection).

CLC Drug Discovery Workbench CLC Main Workbench CLC Genomics Workbench

Transcript Discovery (Beta)

The transcript discovery plug-in enables you to map RNA-Seq reads to a genomic reference and predicts transcripts and genes.

CLC Genomics Workbench

Transfac

The TRANSFAC extension can be used to search for putative transcription factor binding sites in DNA sequences.

CLC Main Workbench CLC Genomics Workbench

Vector NTI import

Vector NTI data import functionality.

CLC Drug Discovery Workbench CLC Sequence Viewer CLC Main Workbench CLC Genomics Workbench

Server plugins

PluginManualSupported onDownloadDeveloper

Additional Alignments Server Plugin

Perform alignments with ClustalO, ClustalW and MUSCLE

CLC Science Server CLC Genomics Server

Advanced Peak Shape Tools Server Plugin (Beta)

peak finding using shape information

CLC Genomics Server

Annotate with GFF file server plugin

Using this plug-in it is possible to annotate a sequence from list of annotations found in a GFF file

CLC Science Server CLC Genomics Server

Biobase GenomeTrax Server Plugin

Biobase GenomeTrax Server Plugin

CLC Genomics Server

Convert Variant Tracks Server Plugin

This plugin lets you convert old variations tracks to new variant tracks.

CLC Genomics Server

Duplicate Mapped Reads Removal Server Plugin (Beta)

Duplicate Mapped Reads Removal

CLC Genomics Server

Duplicate Reads Removal Server Plugin (Beta)

Detects and removes duplicate reads

CLC Genomics Server

Ingenuity Pathway Analysis Server Plugin

Ingenuity Pathway Analysis Server Plug-in

CLC Genomics Server

Map Reads to Reference Affine Server Plugin (Beta)

A fast and memory efficient read mapper with affine gap cost

CLC Genomics Server

Paracel BLAST Server

Paracel BLAST Server

CLC Genomics Server

RNA-Seq Legacy Server Plugin

Legacy version of the RNA-seq algorithm.

CLC Genomics Server

Read Mapping Legacy Server Plugin

CLC Genomics Server

Transcript Discovery Server Plugin (Beta)

The transcript discovery plug-in enables you to map RNA-Seq reads to a genomic reference and predicts transcripts and genes.

CLC Genomics Server

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