Nextflow Modules
Showing module(s) with keyword "seqkit"
| Module | Kind | Keywords | Description |
|---|---|---|---|
| nf-core/fastq_preprocess_seqkit | Workflow | fastq seqkit preprocessing | Subworkflow that preprocesses FASTQ files |
| nf-core/fastq_qc_stats | Workflow | fastq qc fastqc seqfu seqkit seqtk | Generate statistics for short read sequencing data using multiple tools |
| nf-core/fastq_sanitise_seqkit | Workflow | fastq quality control filtering malformed pairing seqkit preprocessing | Filters and reports malformed FASTQ sequences with seqkit/sana, and then pairs any paired-end files using seqkit/pair |
| nf-core/seqkit/grep | Process | filter seqkit subseq grep | Select sequences from a large file based on name/ID |
| nf-core/seqkit/head | Process | filter subset reads fasta fastq seqkit | Subset FASTA/FASTQ files to some number of sequences |
| nf-core/seqkit/pair | Process | seqkit pair fastq | match up paired-end reads from two fastq files |
| nf-core/seqkit/replace | Process | seqkit replace sequence sequence headers fasta | Use seqkit to find/replace strings within sequences and sequence headers |
| nf-core/seqkit/sample | Process | genomics fasta fastq sample subset seqkit | Sample sequences from FASTA/FASTQ files by number or proportion |
| nf-core/seqkit/sliding | Process | seqkit sliding windows | Use seqkit to generate sliding windows of input fasta |
| nf-core/seqkit/split2 | Process | split fastq seqkit | Split single or paired-end fastq.gz files |
| nf-core/seqkit/stats | Process | seqkit fasta stats | simple statistics of FASTA/Q files |
| nf-core/seqkit/translate | Process | seqkit translate protein | Translate DNA/RNA to protein sequence |