nextflow 680 pipeline 263 workflow 156 bioinformatics 141 nf-core 139 genomics 63 docker 55 rna-seq 44 singularity 38 ngs 31 bioinformatics-pipeline 30 nextflow-pipeline 25 nextflow-pipelines 23 metagenomics 22 variant-calling 22 python 20 nanopore 18 rnaseq 17 reproducible-research 16 nextflow-process 16 workflows 15 pipelines 15 assembly 14 containers 14 nextflow-hub 14 groovy 13 cwl 13 atac-seq 13 annotation 12 single-cell 12 rna 11 proteomics 11 genome-assembly 11 sars-cov-2 10 illumina 10 wdl 10 chip-seq 9 r 9 transcriptomics 9 conda 9 snakemake 9 nextflow-workflow 8 phylogenetics 8 microbiome 8 multiqc 8 samtools 8 dsl2 7 next-generation-sequencing 7 sequencing 7 fastq 7 machine-learning 7 hi-c 7 rna-seq-pipeline 7 nextflow-dsl2 7 denovo-assembly 7 quality-control 6 nextflow-plugin 6 hpc 6 virus 6 image-processing 6 tronflow 6 cancer 6 10xgenomics 6 genetics 6 gatk 6 alignment 6 bacteria 6 reproducibility 6 bacterial-genomes 5 fastqc 5 hacktoberfest 5 genome 5 singularity-container 5 reproducible-science 5 azure 5 gwas 5 metabarcoding 5 nextflow-language 5 programming 5 viral 5 rna-seq-analysis 5 whole-genome-sequencing 5 aws 5 kubernetes 5 template 5 cookiecutter 5 mass-spectrometry 5 differential-expression 5 wgs 4 analysis 4 covid-19 4 dna 4 openms 4 16s 4 nanopore-sequencing 4 singularity-containers 4 slurm 4 imputation 4 computational-biology 4 crispr-analysis 4