eager
A fully reproducible and state-of-the-art ancient DNA analysis pipeline (by nf-core)
configs
Config files used to define parameters specific to compute environments at different Institutions (by nf-core)
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| eager | configs | |
|---|---|---|
| 1 | 1 | |
| 124 | 77 | |
| 4.0% | - | |
| 7.6 | 9.7 | |
| 5 days ago | 2 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.
Activity is a relative number indicating how actively a project is being developed. Recent commits have higher weight than older ones.
For example, an activity of 9.0 indicates that a project is amongst the top 10% of the most actively developed projects that we are tracking.
Stars - the number of stars that a project has on GitHub. Growth - month over month growth in stars.
Activity is a relative number indicating how actively a project is being developed. Recent commits have higher weight than older ones.
For example, an activity of 9.0 indicates that a project is amongst the top 10% of the most actively developed projects that we are tracking.
eager
Posts with mentions or reviews of eager.
We have used some of these posts to build our list of alternatives
and similar projects.
-
Generate consensus FASTA files pipeline
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 ;)
configs
Posts with mentions or reviews of configs.
We have used some of these posts to build our list of alternatives
and similar projects.
-
Why does it feels impossible to set up github nextflow pipeline without a root?
To 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.
What are some alternatives?
When comparing eager and configs you can also consider the following projects:
SqueezeMeta - A complete pipeline for metagenomic analysis
argo-events - Event-driven Automation Framework for Kubernetes
mag - Assembly and binning of metagenomes
sarek - Analysis pipeline to detect germline or somatic variants (pre-processing, variant calling and annotation) from WGS / targeted sequencing
rnaseq - RNA sequencing analysis pipeline using STAR, RSEM, HISAT2 or Salmon with gene/isoform counts and extensive quality control.
masurca
rnatoy - A proof of concept RNA-Seq pipeline with Nextflow
patterns - A curated collection of Nextflow implementation patterns