Nextflow Bioinformatics

Open-source Nextflow projects categorized as Bioinformatics

Top 4 Nextflow Bioinformatic Projects

  • sarek

    Analysis pipeline to detect germline or somatic variants (pre-processing, variant calling and annotation) from WGS / targeted sequencing

    Project mention: GATK4 automated pipelines in existence? | reddit.com/r/bioinformatics | 2022-03-11

    The sarek pipeline from nf-core might interest you

  • mag

    Assembly and binning of metagenomes

    Project mention: How do you use Termux? | reddit.com/r/termux | 2022-07-16

    So, I'm a bioinformatician, and currently I am extending my company's data processing pipeline which takes metagenomic sequencing data and performs a number of downstream analyses on it, the results of which are then provided to our customers. Here is an example of such a data processing pipeline: it's a script which orchestrates the execution of a number of tools to get the desired end result. Each of the green bubbles in the flowchart represents a single program which needs to be called specific settings and with data provided to it either by me (as the pipeline input) or from outputs of previous steps in the pipeline.

  • InfluxDB

    Build time-series-based applications quickly and at scale.. InfluxDB is the Time Series Platform where developers build real-time applications for analytics, IoT and cloud-native services. Easy to start, it is available in the cloud or on-premises.

  • eager

    A fully reproducible and state-of-the-art ancient DNA analysis pipeline

  • configs

    Config files used to define parameters specific to compute environments at different Institutions (by nf-core)

NOTE: The open source projects on this list are ordered by number of github stars. The number of mentions indicates repo mentiontions in the last 12 Months or since we started tracking (Dec 2020). The latest post mention was on 2022-07-16.

Nextflow Bioinformatics related posts

Index

What are some of the best open-source Bioinformatic projects in Nextflow? This list will help you:

Project Stars
1 sarek 224
2 mag 112
3 eager 85
4 configs 60
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