Is There A List Of Top N Bioinformatics Or Genome Software Company Or Studio ?
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11.1 years ago
Gentle Yang ▴ 190

I know NCBI, EBI, Ensembl or more other bioinformation database ,and MAQ, SOAP, BWA ... more other softwares. But most are from big genome center or sequence group. So I wanna know if there is some pure software company or studio who develop software in Bioinformatics and Genomics ,and who are they ?

genome software • 20k views
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Just companies selling software/databases or services as well?

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Yeah,include them .

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So many software list but less company/studio list >=<

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Our company, Creative Bioinformatics Consultants www.creativebioinformatics.com) provides user-directed, customized data analysis and software creation for small-to-medium sized projects from academic labs and biotechnology companies that do not have the capabilities or resources to do the work in house. Please contact us via our website or at creativebioinformatics@gmail.com to discuss your project and receive a quote.

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Avadis NGS from Strand Lifesciences, is an integrated platform that provides analysis, management and visualization tools for next-generation sequencing data. It supports extensive workflows for alignment, RNA-Seq, small RNA-Seq, DNA-Seq, and ChIP-Seq experiments.

Avadis NGS comes pre-packaged with comprehensive annotations for several standard organisms from various sources and enables you to create annotations for other organisms. It includes an embedded feature-rich Genome Browser and provides custom visualizations to provide an intuitive feel for analysis results. Various quality control plots and filtering steps ensure that any poor quality data is kept out of downstream analysis. Biological interpretation and discovery tools such as Gene Ontology enrichment, GSEA, NLP derived interaction network analysis, and significant pathways analysis enable taking the analysis all the way from reads to the end goal of the experiment. For more information visit www.avadis-ngs.com

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11.1 years ago
Neilfws 49k

There are some companies of that kind. I'll start: CLC bio.

The problem for companies that specialize in bioinformatics software is that they have to sell it, in the face of (1) a small market and (2) a huge number of free, open-source solutions. So they have to be very good.

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Thanks for your focus on this topic. Your word is one of important reasons !

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11.1 years ago
Pasta ★ 1.3k

And of course: Partek with its excellent Genomic Suite

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11.1 years ago
lh3 33k

NovoCraft. I am quite impressed by novoalign. BTW, they quote my words on their homepage. By "to date", I mean the end of 2009. I have not systematically evaluated which aligner is the most accurate nowadays.

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11.1 years ago
User 59 13k

Also there is Strand Life Sciences who make NGS software and also Agilent's GeneSpring GX.

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Strand's NGS software is called Avadis NGS and it is built on the same technology platform as GeneSpring (which Strand develops for Agilent). Avadis NGS is well documented on its website: http://avadis-ngs.com

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Strand's NGS software is called Avadis NGS and it is built on the same technology platform as GeneSpring (which Strand develops for Agilent). Avadis NGS is well documented on its website: http://avadis-ngs.com. Try it out if you are working with post-alignment RNA, DNA, or ChIP-Seq data.

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11.1 years ago

Eagle Genomics in the UK doing NGS and bespoke software.

Its also worth checking the linkedin groups in bioinformatics.

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11.1 years ago

A couple others:

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8.6 years ago
vaskin90 ▴ 290

Unipro UGENE, Unipro - a software company from Russia, Novosibirsk, UGENE - it's opensource bioinformatics toolkit

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11.1 years ago
Mary 11k

Enlis (just won the Illumina Idea competition). Golden Helix (a lot of people think we at OpenHelix are them...we aren't...)

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11.1 years ago
Hranjeev ★ 1.5k

Synamatix a bioinformatics company operating from South East Asia.

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11.1 years ago
Anonymous ▴ 10

Integromics has great software for NGS data analysis: SeqSolve

Also, here is a nice list of commercial software for RNA-seq data analysis.

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11.0 years ago
Len Trigg ★ 1.6k

Real Time Genomics produces the RTG Investigator suite for NGS mapping and variant detection. AFAIK RTG is the only mapping tool that supports Complete Genomics read data.

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10.9 years ago
User 1566 ▴ 10

There is a List of Next Generation Sequence Analysis/Tools at http://www.g6g-softwaredirectory.com/ and the corresponding companies that make this software are also listed...

Al Shapiro

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10.9 years ago
User 7278 ▴ 20

Check out Avadis NGS if you have to analyze RNA-Seq, ChIP-Seq, whole genome, or exome sequence data.

It is a commercial package, but features like genome browser visualizations, statistics, and packages for annotations and pathways (including Biobase) are handy for people who have limited experience with open source programs.

The same bioinformatics team is behind GeneSpring, great for those accustomed to that UI.

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10.9 years ago
toni ★ 2.2k

You could also have a look here : http://www.completegenomics.com/, a compagny offering NGS services based on their own sequencing methodology.

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9.2 years ago

Another big one: DNAnexus

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9.0 years ago

I started one about a year ago at www.grouthbio.com. I'm trying to be inclusive, so it may not be a list of just the top selling ones. But you may find it interesting.

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9.0 years ago

Illumina BaseSpace

This analysis platform integrates Illumina's own tools with others developed by various partners relevant to this question including:

  • Strand (Elastic Genome Browser)
  • Golden Helix (Genome Browse)
  • Broad Institute of MIT and Harvard (IGV)
  • Biomatters (The Molecular Profiler)
  • SciGenom (OncoMD)
  • Omicia (Opal Launcher)
  • Partek (Partek Flow)
  • DNASTAR (SeqMan NGen)
  • Syapse (Syapse Discovery)
  • Elsevier (Genomics Data)
  • Omixon Biocomputing (HLA Typing)
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8.6 years ago
theofilk • 0

A new one for preprocessing and analyzing systems biology data is InSyBio Ltd. Check it out: http://www.insybio.com/

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8.5 years ago

Our company, Creative Bioinformatics Consultants www.creativebioinformatics.com) provides user-directed, customized data analysis and software creation for small-to-medium sized projects from academic labs and biotechnology companies that do not have the capabilities or resources to do the work in house. Please contact us via our website or at creativebioinformatics@gmail.com to discuss your project and receive a quote.

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6.4 years ago
kalina • 0

You could also take a look at Genestack 

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