JOSS Projects

Scientific Software

Updated 10 months ago

AliNe: A Flexible and Efficient Nextflow Pipeline for Read Alignment - Published in JOSS (2025)

bbmap bmw-mem2 bowtie bowtie2 bwa bwa-sw graphmap2 hisat2 kallisto last minimap2 nextflow ngmlr novoalign nucmer salmon star starlong sublong subread

Scientific Software · Peer-reviewed

Scientific Software

Updated 10 months ago

nf-gwas-pipeline: A Nextflow Genome-Wide Association Study Pipeline - Published in JOSS (2021)

bioinformatics-pipeline nextflow

Earth and Environmental Sciences (40%) Materials Science (40%)

Scientific Software · Peer-reviewed

Scientific Software

Updated 10 months ago

ALPPACA - A tooL for Prokaryotic Phylogeny And Clustering Analysis - Published in JOSS (2022)

clustering nextflow phylogeny pipeline

Scientific Software · Peer-reviewed

Updated 10 months ago

Analysis pipeline for CUT&RUN and CUT&TAG experiments that includes QC, support for spike-ins, IgG controls, peak calling and downstream analysis.

cutandrun cutandrun-seq cutandtag cutandtag-seq nextflow nf-core pipeline workflow

Updated 10 months ago

Coprolite host Identification pipeline

adna ancient-dna coprolite microbiome nextflow nf-core pipeline workflow

ecosyste.ms