sarek VS mag

Compare sarek vs mag and see what are their differences.

sarek

Analysis pipeline to detect germline or somatic variants (pre-processing, variant calling and annotation) from WGS / targeted sequencing (by nf-core)
nextflow Workflow Pipeline Bioinformatics Genomics cancer next-generation-sequencing Conda reproducible-research Containers germline somatic variant-calling nf-core gatk4 Annotation whole-genome-sequencing whole-exome-sequencing pre-processing target-panels
Source Code
nf-co.re
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mag

Assembly and binning of metagenomes (by nf-core)
Workflow nextflow metagenomics Assembly binning Annotation nf-core Pipeline Bioinformatics nanopore nanopore-sequencing metagenomes long-read-sequencing
Source Code
nf-co.re
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sarek mag
5 2
332 182
3.9% 4.4%
9.8 9.5
4 days ago 24 days ago
Nextflow Nextflow
MIT License MIT License
The number of mentions indicates the total number of mentions that we've tracked plus the number of user suggested alternatives.
Stars - the number of stars that a project has on GitHub. Growth - month over month growth in stars.
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sarek

Posts with mentions or reviews of sarek. We have used some of these posts to build our list of alternatives and similar projects. The last one was on 2022-03-11.

mag

Posts with mentions or reviews of mag. We have used some of these posts to build our list of alternatives and similar projects. The last one was on 2022-07-16.
  • How do you use Termux?
    3 projects | /r/termux | 16 Jul 2022
    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.
  • Is it possible to assemble a complete bacterial genome using short reads?
    2 projects | /r/bioinformatics | 9 Aug 2021

What are some alternatives?

When comparing sarek and mag you can also consider the following projects:

GATK - Germline Variant Calling Nextflow Pipeline Based On GATK4 Best Practices

SqueezeMeta - A complete pipeline for metagenomic analysis

galaxy - Data intensive science for everyone.

atlas - A modern tool for managing database schemas

rnaseq-nf - A proof of concept of RNAseq pipeline

nextflow - A DSL for data-driven computational pipelines

rnatoy - A proof of concept RNA-Seq pipeline with Nextflow

rnaseq - RNA sequencing analysis pipeline using STAR, RSEM, HISAT2 or Salmon with gene/isoform counts and extensive quality control.

configs - Config files used to define parameters specific to compute environments at different Institutions

spades - SPAdes Genome Assembler

patterns - A curated collection of Nextflow implementation patterns

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

sarek vs GATK mag vs SqueezeMeta sarek vs galaxy mag vs atlas sarek vs rnaseq-nf mag vs nextflow sarek vs rnatoy mag vs rnaseq sarek vs configs mag vs spades sarek vs patterns mag vs eager