Top 4 Nextflow Bioinformatic Projects
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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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Project mention: Is it possible to assemble a complete bacterial genome using short reads? | reddit.com/r/bioinformatics | 2021-08-09
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Scout APM
Less time debugging, more time building. Scout APM allows you to find and fix performance issues with no hassle. Now with error monitoring and external services monitoring, Scout is a developer's best friend when it comes to application development.
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So after a lot of reading and talking with some people i was able to do it with the eager pipeline (https://github.com/nf-core/eager) migth be a bit dificult to set up, but it is really useful. I leave this here for you and other people that may see this ;)
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configs
Config files used to define parameters specific to compute environments at different Institutions (by nf-core)
Project mention: Why does it feels impossible to set up github nextflow pipeline without a root? | reddit.com/r/bioinformatics | 2021-07-07To pick a random example config file (https://github.com/nf-core/configs/blob/master/conf/cambridge.config) - they have specified that singularity should be used, that the cluster's job scheduler is slurm and the maximum memory/time/cpus.
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 | 142 |
| 2 | mag | 76 |
| 3 | eager | 61 |
| 4 | configs | 40 |
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