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adapt_find

Tool for identifying adapter sequences from single-end sequencing files

cnvkit

Copy number variant detection from targeted DNA sequencing

decona

fastq to polished sequenses: pipeline suitable for mixed samples and long (Nanopore) reads

flye

De novo assembler for single molecule sequencing reads using repeat graphs

isonclust

De novo clustering of long transcript reads into genes

kraken2

The second version of the Kraken taxonomic sequence classification system

krakentools

KrakenTools provides individual scripts to analyze Kraken/Kraken2/Bracken/KrakenUniq output files

llm.c

LLM training in simple, raw C/CUDA

mmseqs2

MMseqs2: ultra fast and sensitive search and clustering suite

modules

Repository to host tool-specific module files for the Nextflow DSL2 community!

nf-core-riboseq

nf-core-tools

Python package with helper tools for the nf-core community.

rebaler

reference-based long read assemblies of bacterial genomes

rfdiffusion

Code for running RFdiffusion

rnanorm

Normalization of RNA-seq gene expression

unicycler

hybrid assembly pipeline for bacterial genomes