GATK Alternatives
Similar projects and alternatives to GATK
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sarek
Analysis pipeline to detect germline or somatic variants (pre-processing, variant calling and annotation) from WGS / targeted sequencing
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WorkOS
The modern identity platform for B2B SaaS. The APIs are flexible and easy-to-use, supporting authentication, user identity, and complex enterprise features like SSO and SCIM provisioning.
NOTE:
The number of mentions on this list indicates mentions on common posts plus user suggested alternatives.
Hence, a higher number means a better GATK alternative or higher similarity.
GATK reviews and mentions
Posts with mentions or reviews of GATK.
We have used some of these posts to build our list of alternatives
and similar projects. The last one was on 2022-03-11.
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GATK4 automated pipelines in existence?
Are you looking for a germline variant calling pipeline? If so, try https://github.com/lifebit-ai/GATK. If you know Nextflow, you can edit the script. Apparently, it uses Docker so you get the containerization.
Stats
Basic GATK repo stats
1
11
10.0
about 4 years ago
The primary programming language of GATK is Nextflow.
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