Nextflow Modules
Showing module(s) with keyword "bwa"
| Module | Kind | Keywords | Description |
|---|---|---|---|
| nf-core/bwa/aln | Process | bwa aln short-read align reference fasta map fastq | Find SA coordinates of the input reads for bwa short-read mapping |
| 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/bwa/sampe | Process | bwa aln short-read align reference fasta map sam bam | Convert paired-end bwa SA coordinate files to SAM format |
| nf-core/bwa/samse | Process | bwa aln short-read align reference fasta map sam bam | Convert bwa SA coordinate file to SAM format |
| nf-core/circularmapper/circulargenerator | Process | bwa circular mapping genomics | A method to improve mappings on circular genomes, using the BWA mapper. |
| nf-core/circularmapper/realignsamfile | Process | realign circular map reference fasta bam short-read bwa | Realign reads mapped with BWA to elongated reference genome |
| nf-core/fastq_align_bwaaln | Workflow | bwa aln fasta bwa align map | Align FASTQ files against reference genome with the bwa aln short-read aligner producing a sorted and indexed BAM files |
| nf-core/fastq_create_umi_consensus_fgbio | Workflow | fgbio umi samblaster samtools bwa | This workflow uses the suite FGBIO to identify and remove UMI tags from FASTQ reads convert them to unmapped BAM file, map them to the reference genome, and finally use the mapped information to group UMIs and generate consensus reads in each group |
| nf-core/sentieon/bwamem | Process | mem bwa alignment map fastq bam sentieon | Performs the alignment of fastq files to a fasta reference using Sentieon's BWA MEM |