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Nextflow86
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Metagenomics10
rna9
nanopore7
rna-seq7
variant-calling7
Genomics5
Proteomics5
single-cell5
Assembly4
DNA4
FASTQ4
illumina4
microbiome4
NGS4
openms4
taxonomic-profiling4
10xgenomics3
ATAC-seq3
denovo-assembly3
genome-assembly3
long-read-sequencing3
mass-spectrometry3
taxonomic-classification3
WGS3
10x-genomics2
adna2
Alignment2
Annotation2
cancer2
ChIP-seq2
demultiplexing2
differential-expression2
eDNA2
GATK42
image-processing2
long-reads2
Metabarcoding2
nanopore-sequencing2
pacbio2
peak-calling2
Profiling2
proteogenomics2
quantification2
shotgun2
star-solo2
structural-variants2
training2
transcriptome2
Transcriptomics2
Virus2
16S1
18S1
airr1
alevin1
alphafold21
alternative-splicing1
amp1
Amplicon1
amplicon-sequencing1
ampliconarchitect1
ampliconsuite1
AMR1
ancient-dna1
ancient-dna-analysis1
ancientdna1
antibiotic-resistance1
antimicrobial-peptides1
antimicrobial-resistance-genes1
arg1
ARTIC1
atac1
b-cell1
bacteria1
bacterial1
bacterial-genome-analysis1
bacterial-genomes1
bamtofastq1
bases2fastq1
bcl2fastq1
benchmark1
bgc1
binning1
biosynthetic-gene-clusters1
bisulfite-sequencing1
bustools1
BWA-mem1
bwa-mem21
cage1
cage-seq1
cageseq-data1
cell-lines1
Cellranger1
chimeric-alignment1
ChIP1
chromatin-accessibiity1
chromatin-immunoprecipitation1
chromosome-conformation-capture1
circle-seq1
circular1
Classification1
clinical1
clip1
clip-seq1
comparative-genomics1
Consensus1
contigs1
Conversion1
coprolite1
corruption1
cosmic1
covid-191
covid191
cramtofastq1
crispr1
crispr-analysis1
crispr-cas1
cross-validation1
ctat1
cutandrun1
cutandrun-seq1
cutandtag1
cutandtag-seq1
cytometry1
data-cleaning1
data-independent-proteomics1
data-recovery1
database1
database-builder1
dda1
ddbj1
de-identification1
decontamination1
deep-learning1
deep-variant1
demo1
denovo1
deseq21
dia1
dia-proteomics1
diagnostics1
differential-abundance1
dna-methylation1
dot-plot1
download1
draft1
drug-response1
drug-response-prediction1
drugs1
dualrna-seq1
earth-observation1
eccdna1
ecdna1
elementbiosciences1
em-seq1
ena1
epidemiology1
epigenome1
Epigenomics1
epitope1
epitope-prediction1
eukaryotes1
evolution1
evolutionary-tree1
exome1
extrachromosomal-circular-dna1
facs-sorting1
fair-principles1
fastq-corrupted1
fastq-format1
FastQC1
filter1
fish1
function1
fusion1
fusion-genes1
gene-expression1
gene-fusion1
generalization1
genome1
genomics-visualization1
genotype1
geo1
Germline1
ggbio1
gnomad1
google1
gro-seq1
gsea1
Hi-C1
HiC1
hicar1
hla1
hla-typing1
horizontal-gene-transfer1
host-pathogen1
hybrid-assembly1
hyperparameter-tuning1
identification1
image-analysis1
image-segmentation1
imaging1
immcantation1
immunology1
immunopeptidomics1
immunorepertoire1
imputation1
iontorrent1
isoseq1
isoseq-31
ITS1
k-mer1
kallisto1
kmer1
kmer-counting1
kmer-frequency-count1
kraken21
krona1
label-free-quantification1
landsat1
last1
lfq1
limma1
linked-reads1
long-read1
low-pass-sequencing1
machine-learning1
macs21
mapping1
MARS-seq1
mass-spec1
Metabolomics1
metagenomes1
metagenomic-profiling1
metataxonomics1
metatranscriptomics1
methyl-seq1
mhc1
mhc-binding-prediction1
microarray1
minimal-example1
mnase-seq1
molecular-pixelation1
molecularcartography1
ms11
ms21
Multi-omics1
MultiQC1
nanostring1
nanostringnorm1
nascent1
natural-products1
nucleosome1
nucleosome-maps1
nucleosome-positioning1
ONT1
optitype1
oxford-nanopore1
pairwise-alignment1
panel1
pangenome1
pathogen1
pathogen-genomics1
pbat1
peptides1
personalized-medicine1
phasing1
phylogenetic-placement1
phylogenetics1
phylogeny1
pixelator1
pixelgen-technologies1
population-genetics1
pre-processing1
pro-seq1
prokaryotes1
protein-databases1
protein-families1
protein-fold-prediction1
protein-folding1
protein-sequences1
protein-structure1
proteins1
puretarget1
pypgatk1
QC1
qiime21
quantseq1
randomization-tests1
rare-disease1
readmapping1
reads-interleaving1
recovery-tool1
repseq1
rna-rbp-interactions1
RNASEQ1
robustness-assessment1
rrbs1
rrna1
SAMTools1
SARS-CoV-21
satellite-imagery1
screening1
scRNA-seq1
secondary-metabolites1
Segmentation1
sequence-classification1
shiny1
short-reads1
single-cell-omics1
single-cell-rna-seq1
slamseq1
small-rna1
smrna-seq1
snv1
Somatic1
spatial1
spectral-unmixing1
splicing1
sra1
Supernova1
synapse1
synteny1
tama1
target-panels1
targeted1
taxonomies1
taxonomy-assignment1
tidyverse1
tmt1
transcription1
transcriptional-dynamics1
tree1
trend-analysis1
trends1
tss1
Tutorial1
ultra1
umi1
umis1
unique-molecular-identifier1
unpaired-reads1
variant-annotation1
viral1
viral-integration1
viral-metagenomics1
Virology1
virus-genomes1
viruses1
virusintegrationfinder1
well-formed1
wes1
whole-exome-sequencing1
whole-genome-alignment1
whole-genome-sequencing1
wigits1
worflow1
wts1
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Submitter
WorkflowHub Bot86
Team
nf-core86
Space
nf-core86
Scientific disciplines
Computer Science86
86
Workflows visible to you, out of a total of 87
Assembly and intrahost/low-frequency variant calling for viral samples
Type: Nextflow
Creators: Sarai Varona and Sara Monzon, Patel H, Varona S and Monzon S
Submitter: WorkflowHub Bot
Deprecated
Google DeepVariant variant caller as a Nextflow pipeline
Automated quantitative analysis of DIA proteomics mass spectrometry measurements.
Differential abundance analysis
Dual RNA-seq pipeline
A fully reproducible and state-of-the-art ancient DNA analysis pipeline
Type: Nextflow
Creators: Alexander Peltzer, The nf-core/eager community, Stephen Clayton, James A Fellows-Yates
Submitter: WorkflowHub Bot
Pipeline to fetch metadata and raw FastQ files from public databases
A pipeline to investigate horizontal gene transfer from NGS data
Analysis of Chromosome Conformation Capture data (Hi-C)
This pipeline analyses data for HiCAR data, a robust and sensitive multi-omic co-assay for simultaneous measurement of transcriptome, chromatin accessibility and cis-regulatory chromatin contacts.
