galaxy
sarek
galaxy | sarek | |
---|---|---|
4 | 5 | |
1,315 | 338 | |
1.4% | 2.1% | |
10.0 | 9.9 | |
1 day ago | 2 days ago | |
Python | Nextflow | |
GNU General Public License v3.0 or later | MIT License |
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.
galaxy
-
Need for GUIs for bioinformatic tools?
Maybe it would help you to look at the galaxy project: GitHub main site
- BIOINFORMATICS PROJECT
- Any bioinfo open source projects looking for contributors?
- Developed a new kind of dual extruder system on fully custom built 3D printer
sarek
- Recommendations for software or online resources
- Best somatic variant callers?
-
GATK4 automated pipelines in existence?
The sarek pipeline from nf-core might interest you
- Workflow Question
-
aws batch keeps the "Desired vCPUs" high long after they should be reduced
The issue is specific to https://github.com/nf-core/sarek and/or it's usage of https://www.nextflow.io/
What are some alternatives?
nextflow - A DSL for data-driven computational pipelines
GATK - Germline Variant Calling Nextflow Pipeline Based On GATK4 Best Practices
Biopython - Official git repository for Biopython (originally converted from CVS)
rnaseq-nf - A proof of concept of RNAseq pipeline
deepvariant - DeepVariant is an analysis pipeline that uses a deep neural network to call genetic variants from next-generation DNA sequencing data.
mag - Assembly and binning of metagenomes
fastp - An ultra-fast all-in-one FASTQ preprocessor (QC/adapters/trimming/filtering/splitting/merging...)
rnatoy - A proof of concept RNA-Seq pipeline with Nextflow
galaxy_ng - Ansible Galaxy Server - Issues on https://forum.ansible.com Docs on https://galaxy-ng.readthedocs.io/
configs - Config files used to define parameters specific to compute environments at different Institutions
ncbi-genome-download - Scripts to download genomes from the NCBI FTP servers
patterns - A curated collection of Nextflow implementation patterns