Nextflow Modules
Showing 2275 module(s)
| Module | Kind | Keywords | Description |
|---|---|---|---|
| claymcleod/foobar_with_workflow | Process | n/a | Test module that intentionally includes a named workflow |
| nextflow-io/hello | Process | n/a | Print a greeting to standard output |
| nf-core/aardvark/compare | Process | variant calling benchmarking vcf comparison consensus | A tool to evaluate variant calling performance by comparing a query VCF against a truth VCF. |
| nf-core/aardvark/merge | Process | variant calling vcf comparison consensus merging | A tool to evaluate and merge multiple variant calls into a consensus VCF. |
| nf-core/abacas | Process | genome assembly contiguate | Contiguate draft genome assembly |
| nf-core/abra2 | Process | alignment realignment indels bam dna rna splice-junctions assembly | Assembly Based ReAligner for next-generation sequencing data |
| nf-core/abricate/run | Process | bacteria assembly antimicrobial resistance | Screen assemblies for antimicrobial resistance against multiple databases |
| nf-core/abricate/summary | Process | bacteria assembly antimicrobial reistance | Screen assemblies for antimicrobial resistance against multiple databases |
| nf-core/abritamr/run | Process | bacteria fasta antibiotic resistance | A NATA accredited tool for reporting the presence of antimicrobial resistance genes in bacterial genomes |
| nf-core/abundance_differential_filter | Workflow | differential abundance expression count matrix fold-change | A subworkflow for filtering differential abundance results |
| nf-core/abyss/abysspe | Process | genome assembly genome assembler short reads de novo assembler | ABySS is a de novo sequence assembler intended for short paired-end reads and genomes of all sizes. |
| nf-core/adapterremoval | Process | trimming adapters merging fastq | Trim sequencing adapters and collapse overlapping reads |
| nf-core/adapterremovalfixprefix | Process | adapterremoval fastq dedup | Fixes prefixes from AdapterRemoval2 output to make sure no clashing read names are in the output. For use with DeDup. |
| nf-core/admixture | Process | ancestry population genetics admixture reference panels gwas | ADMIXTURE is a program for estimating ancestry in a model-based manner from large autosomal SNP genotype datasets, where the individuals are unrelated (for example, the individuals in a case-control association study). |
| nf-core/affy/justrma | Process | affy microarray expression matrix | Read CEL files into an ExpressionSet and generate a matrix |
| nf-core/agat/convertbed2gff | Process | genome bed gff conversion | Takes a bed12 file and converts to a GFF3 file |
| nf-core/agat/convertgff2bed | Process | genome bed gff conversion | Takes a GFF3 file and converts to a bed12 file |
| nf-core/agat/convertspgff2gtf | Process | genome gff gtf conversion | Converts a GFF/GTF file into a proper GTF file |
| nf-core/agat/convertspgff2tsv | Process | genome gff gtf conversion tsv | Converts a GFF/GTF file into a TSV file |
| nf-core/agat/convertspgxf2gxf | Process | genome gff gtf |