bcbio-nextgen

Validated, scalable, community developed variant calling, RNA-seq and small RNA analysis (by bcbio)

Bcbio-nextgen Alternatives

Similar projects and alternatives to bcbio-nextgen

NOTE: The number of mentions on this list indicates mentions on common posts plus user suggested alternatives. Hence, a higher number means a better bcbio-nextgen alternative or higher similarity.

bcbio-nextgen reviews and mentions

Posts with mentions or reviews of bcbio-nextgen. We have used some of these posts to build our list of alternatives and similar projects.
  • Deep Sleep May Be the Best Defense Against Alzheimer’s
    1 project | news.ycombinator.com | 22 May 2023
    Re WGS there are a lot of well established tool chains that are FLOSS (eg https://github.com/bcbio/bcbio-nextgen). You could run alignment and variant calling on a beefy workstation. A laptop would potentially work. Easy to test this with publicly available raw data. Another option: The sequencing provider often will run alignment and some default variant calling for you. Annotating and analysing these variants can be done on pretty much any computer, all with open source software. A SNP chip is even easier to deal with as the computational requirements are less.

    Interpreting the results is a more manual process. Really depends on what you are interested in.

  • Advices on how to advance in the field to a beginner
    1 project | /r/bioinformatics | 1 Sep 2021
    There are plenty of workshops and free documentation online, a few from the top of my head : https://hbctraining.github.io/main/, https://software-carpentry.org/lessons/, https://github.com/bcbio/bcbio-nextgen.

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Basic bcbio-nextgen repo stats
2
973
6.7
2 months ago
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