Nextflow Modules
Showing module(s) with keyword "sequencing"
| Module | Kind | Keywords | Description |
|---|---|---|---|
| nf-core/artic/aligntrim | Process | artic primer trimming amplicon genomics sequencing nanopore illumina | Standalone version of fieldbioinformatics aligntrim. Soft clips amplicon scheme primer sites in BAM/SAM files. |
| nf-core/crabs/import | Process | insilico amplicon sequencing inhouse | In-house generated or curated data can be imported into CRABS. |
| nf-core/crabs/insilicopcr | Process | insilico PCR amplicon sequencing | CRABS extracts the amplicon region of the primer set by conducting an in silico PCR. |
| nf-core/crispresso2 | Process | genome editing CRISPR sequencing amplicon | A software pipeline for the analysis of genome editing outcomes from deep sequencing data |
| nf-core/fastq_download_prefetch_fasterqdump_sratools | Workflow | SRA NCBI sequencing fastq prefetch fasterq-dump | Download FASTQ sequencing reads from the NCBI's Sequence Read Archive (SRA). |
| nf-core/fastqutils/info | Process | fastq qualitycontrol genomics sequencing | Performs quality control of FASTQ files |
| nf-core/geofetch | Process | GEO expression microarray sequencing | geofetch is a command-line tool that downloads and organizes data and metadata from GEO and SRA |
| nf-core/holodeck/simulate | Process | simulation fastq reads sequencing benchmarking | Simulate sequencing reads from a reference genome with holodeck |
| nf-core/pycoqc | Process | qc quality control sequencing nanopore | write your description here |
| nf-core/sratools/fasterqdump | Process | sequencing FASTQ dump | Extract sequencing reads in FASTQ format from a given NCBI Sequence Read Archive (SRA). |
| nf-core/sratools/prefetch | Process | sequencing fastq prefetch | Download sequencing data from the NCBI Sequence Read Archive (SRA). |
| nf-core/trimgalore | Process | trimming adapters sequencing fastq | A wrapper around Cutadapt and FastQC to consistently apply adapter and quality trimming to FastQ files, with extra functionality for RRBS data |