Nextflow Modules
Showing module(s) with keyword "sequence"
| Module | Kind | Keywords | Description |
|---|---|---|---|
| nf-core/agat/spextractsequences | Process | genomics gff extract fasta sequence feature | This script extracts sequences in fasta format according to features described in a gff file. |
| nf-core/blat | Process | blat sequence search | Queries a sequence subject |
| nf-core/fq/generate | Process | generate fastq random sequence | fq generate is a FASTQ file pair generator. It creates two reads, formatting names as described by Illumina. While generate creates "valid" FASTQ reads, the content of the files are completely random. The sequences do not align to any genome. This requires a seed (--seed) to be supplied in ext.args. |
| nf-core/nucmer | Process | align nucleotide sequence | NUCmer is a pipeline for the alignment of multiple closely related nucleotide sequences. |
| nf-core/picard/createsequencedictionary | Process | sequence dictionary picard | Creates a sequence dictionary for a reference sequence. |
| nf-core/samtools/dict | Process | dict fasta sequence | Create a sequence dictionary file from a FASTA file |
| nf-core/samtools/splitheader | Process | view bam sam cram readgroup program sequence header | Extract header lines from a SAM/BAM/CRAM file into separate files depending on type |
| nf-core/seqkit/replace | Process | seqkit replace sequence sequence headers fasta | Use seqkit to find/replace strings within sequences and sequence headers |
| nf-core/stitchr/thimble | Process | TCR sequence immunology | Automatic TCR nucleotide sequence generation from V, J and CDR3 information |
| nf-core/yak/count | Process | kmer fastq sequence count assembly | a tool to build k-mer hash table for fasta and fastq files |