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  • Companies offering next gen sequence analysis services

    Hi all,

    I am new to this field and am currently doing some background research. I'm just wondering initially if there are many (any?) companies out there who offer next gen sequence analysis services?

    Thanks in advance

    Gavin

  • #2
    Several sequencing centres do (including the one where I'm currently studying). However, you might want to specify which technology you're looking for, as it may make a difference in terms of what people suggest for you.
    The more you know, the more you know you don't know. —Aristotle

    Comment


    • #3
      Yes, as apfejes mentioned, there are plenty of companies that provide a range of services for next gen sequencing and analysis... also including ours :-)

      Have you seen this list? I know it's not listing analysis services alone, but I think there will be many in there that can do it.

      Discussions about next gen sequencing service providers, reviews & experiences, etc. No overtly commercial content permitted without prior approval.


      Maybe we should start a second list for analysis services...

      Scott.

      Comment


      • #4
        Go for it, or I can move this one to the Service Providers forum.

        Comment


        • #5
          Thnaks for the replies!

          From my perspective, a separate list for analysis services would be useful but I don't know what other members' opinions are?

          Comment


          • #6
            I totally agree: a specific list for analysis services (from academia, companies, sequencing centers..) would be definitely more than useful!

            Comment


            • #7
              Any volunteers or alternatively suggestions on how to go about creating this list? As it stands I wouldn't know where to start.

              Comment


              • #8
                Potentially interesting info could be:

                Name of the analysis tool
                URL
                Source: company name, institute
                Price: free or $oft
                Supported machines (platform)
                OS: Linux, Mac, Windows, public web based platform..
                GUI: none (command line), yes, web-based, with genome browser..
                Input: raw image, fastq reads, alignment files, BED files..
                Output: numbers, tables, graphs, Excel sheets..
                Ref (papers, if any)
                Base calling: Y/N + method
                Read alignment: Y/N + method
                Read assembly: Y/N + method
                SNP calling: N/Y + method
                Genomic variations, etc: Y/N + method
                Gene expression: Y/N + method (RPKM, etc)
                Other features

                Thoughts, comments? Anybody else interested?
                Additional suggestions before starting the table? (a new thread in the service providers section i guess?)
                s.

                Comment


                • #9
                  Originally posted by steven View Post
                  Potentially interesting info could be:

                  Name of the analysis tool
                  URL
                  Source: company name, institute
                  Price: free or $oft
                  Supported machines (platform)
                  OS: Linux, Mac, Windows, public web based platform..
                  GUI: none (command line), yes, web-based, with genome browser..
                  Input: raw image, fastq reads, alignment files, BED files..
                  Output: numbers, tables, graphs, Excel sheets..
                  Ref (papers, if any)
                  Base calling: Y/N + method
                  Read alignment: Y/N + method
                  Read assembly: Y/N + method
                  SNP calling: N/Y + method
                  Genomic variations, etc: Y/N + method
                  Gene expression: Y/N + method (RPKM, etc)
                  Other features

                  Thoughts, comments? Anybody else interested?
                  Additional suggestions before starting the table? (a new thread in the service providers section i guess?)
                  s.
                  Much of what you quote below is what is in the software Wiki. A separate Wiki for paid sequencing & analysis services could be useful, but duplicative effort should be minimized. I would lump actual sequence production with software services; many organizations offer both (either directly or as a pass-through).

                  For example, if something is a service then the OS & GUI seem pretty irrelevant questions. Perhaps you do want to include free services, but then only the web-based ones and not anything that requires installation locally beyond getting the right common accessories (Java runtime, Flash, etc)

                  If as a Wiki, rather than a bunch of Y/N it would probably make more sense to have a compact (but expandable) set of keywords with agreed meaning. Those might be in larger categories (again, the software Wiki is a good model to start with).

                  Comment

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