Nextflow Modules
Showing module(s) with keyword "alignment"
| Module | Kind | Keywords | Description |
|---|---|---|---|
| cellgeni/starsolo10x | Process | STARsolo STAR alignment single-cell 10x RNA-seq count matrix | Aligns 10x single-cell RNA-seq FASTQs to a reference genome using STARsolo, producing per-sample output directories with count matrices and summary statistics. |
| nf-core/abra2 | Process | alignment realignment indels bam dna rna splice-junctions assembly | Assembly Based ReAligner for next-generation sequencing data |
| nf-core/alignoth | Process | genomics alignment visualization pileup plotting | Creating alignment plots from bam files |
| nf-core/amps | Process | malt MaltExtract HOPS amps alignment metagenomics ancient DNA aDNA palaeogenomics archaeogenomics microbiome authentication damage edit distance post Post-processing visualisation | Post-processing script of the MaltExtract component of the HOPS package |
| nf-core/ashlar | Process | image_processing alignment registration | Alignment by Simultaneous Harmonization of Layer/Adjacency Registration |
| nf-core/busco/phylogenomics | Process | phylogenies orthologs alignment | Construct species phylogenies using BUSCO proteins |
| nf-core/bwafastalign/mem | Process | mem bwa bwafastalign alignment map fastq bam sam cram | Performs fastq alignment to a fasta reference using BWA-FastAlign. |
| nf-core/bwa/mem | Process | mem bwa alignment map fastq bam sam | Performs fastq alignment to a fasta reference using BWA |
| nf-core/bwamem2/mem | Process | mem bwa alignment map fastq bam sam | Performs fastq alignment to a fasta reference using BWA |
| nf-core/bwamem3/mem | Process | mem bwa alignment map fastq bam sam | Align fastq reads to a fasta reference using bwa-mem3 |
| nf-core/bwameme/mem | Process | mem bwa bwamem2 bwameme alignment map fastq bam sam cram | Performs fastq alignment to a fasta reference using BWA-MEME |
| nf-core/bwameth/align | Process | bwameth alignment 3-letter genome map methylation 5mC methylseq bisulphite bisulfite fastq bam | Performs alignment of BS-Seq reads using bwameth |
| nf-core/cdhit/cdhit | Process | cluster protein alignment fasta | Cluster protein sequences using sequence similarity |
| nf-core/cdhit/cdhitest | Process | cluster nucleotide |