Nextflow Modules
Showing module(s) with keyword "miRNA"
| Module | Kind | Keywords | Description |
|---|---|---|---|
| nf-core/bam_stats_mirna_mirtop | Workflow | miRNA isomirs bam stats | mirtop is a command line tool to annotate miRNAs and isomiRs and compute general statistics using the mirGFF3 format. |
| nf-core/fastq_find_mirna_mirdeep2 | Workflow | miRNA FASTQ FASTA Bowtie miRDeep2 | This subworkflow identifies miRNAs from FASTQ files using miRDeep2. The workflow converts FASTQ to FASTA, processes and replaces any whitespace in sequence IDs, builds a Bowtie index of the genome, and then maps reads using miRDeep2 mapper before identifying known and novel miRNAs. |
| nf-core/mirdeep2/mirdeep2 | Process | mirdeep2 miRNA RNA sequencing | miRDeep2 is a tool for identifying known and novel miRNAs in deep sequencing data by analyzing sequenced RNAs. It integrates the mapping of sequencing reads to the genome and predicts miRNA precursors and mature miRNAs. |
| nf-core/nacho/normalize | Process | nacho nanostring mRNA miRNA qc | NACHO (NAnostring quality Control dasHbOard) is developed for NanoString nCounter data. NanoString nCounter data is a messenger-RNA/micro-RNA (mRNA/miRNA) expression assay and works with fluorescent barcodes. Each barcode is assigned a mRNA/miRNA, which can be counted after bonding with its target. As a result each count of a specific barcode represents the presence of its target mRNA/miRNA. |
| nf-core/nacho/qc | Process | nacho nanostring mRNA miRNA qc | NACHO (NAnostring quality Control dasHbOard) is developed for NanoString nCounter data. NanoString nCounter data is a messenger-RNA/micro-RNA (mRNA/miRNA) expression assay and works with fluorescent barcodes. Each barcode is assigned a mRNA/miRNA, which can be counted after bonding with its target. As a result each count of a specific barcode represents the presence of its target mRNA/miRNA. |