Workflows
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Tool
MultiQC17
SAMtools13
fastp9
gfastats8
Cutadapt7
BEDTools6
Bowtie 26
lofreq6
BUSCO5
BWA5
ggplot25
MACS5
Minimap25
snpEff5
Bandage4
BCFtools4
GenomeScope 2.04
kraken24
Merqury4
Gromacs3
iVar3
QualiMap3
ToolDistillator3
AmberTools2
Cufflinks2
MaxQuant2
Medaka2
Open Babel2
purge_dups2
RDKit2
STAR2
ABRicate1
BamTools1
BLAST1
Bracken1
Bwa-mem21
bx-python1
ChemicalToolbox1
Clair31
Clustal 2 (Clustal W, Clustal X)1
DESeq21
edgeR1
FastQC1
FastTree1
Flye1
FreeBayes1
GOseq1
Integron Finder1
ISEScan1
KrakenTools1
MetaNovo1
msConvert1
MSstats1
NanoPlot1
Newick Utilities1
PlasmidFinder1
QUAST1
Recentrifuge1
SeqCode1
shovill1
SRA Software Toolkit1
StringTie1
SuCOS1
taxonomy_krona_chart1
Unipept1
UniProt1
Vcflib1
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Tag
Genomics9
Metagenomics8
rna8
nanopore7
rna-seq7
covid-196
Assembly5
ChIP5
covid19.galaxyproject.org5
Proteomics5
single-cell5
variant-calling5
ABRomics4
bacterial-genomics4
FASTQ4
illumina4
microbiome4
openms4
10xgenomics3
Annotation3
ARTIC3
ATAC-seq3
denovo-assembly3
DNA3
long-read-sequencing3
mass-spectrometry3
Metabolomics3
RNASEQ3
taxonomic-classification3
taxonomic-profiling3
10x-genomics2
adna2
AMR2
antibiotic-resistance2
antimicrobial-resistance-genes2
ChIP-seq2
demultiplexing2
differential-expression2
eDNA2
fasta2
GATK42
genome-assembly2
GTN2
Hi-C2
image-processing2
long-reads2
Metabarcoding2
MS2
nanopore-sequencing2
NGS2
ONT2
paired-end2
peak-calling2
proteogenomics2
quality2
quantification2
Reviewed2
shotgun2
star-solo2
taxonomy-assignment2
transcriptome2
Transcriptomics2
vgp2
Virus2
workflow4metabolomics2
#single-cell1
16S1
18S1
airr1
alevin1
Alignment1
alphafold21
alternative-splicing1
amp1
Amplicon1
amplicon-sequencing1
ampliconarchitect1
ampliconsuite1
AMR-detection1
ancient-dna1
ancient-dna-analysis1
ancientdna1
antimicrobial resistance1
antimicrobial-peptides1
arg1
atac1
ATACseq1
b-cell1
bacteria1
bacterial1
bacterial-genome-analysis1
bacterial-genomes1
bamtofastq1
bases2fastq1
bcl2fastq1
bgc1
binning1
biosynthetic-gene-clusters1
bisulfite-sequencing1
bustools1
BWA-mem1
bwa-mem21
BY-COVID1
cage1
cage-seq1
cageseq-data1
cancer1
Cellranger1
chimeric-alignment1
chromatin-accessibiity1
chromatin-immunoprecipitation1
chromosome-conformation-capture1
circle-seq1
circular1
Classification1
clip1
clip-seq1
comparative-genomics1
Consensus1
contigs1
Conversion1
coprolite1
cosmic1
covid191
cramtofastq1
crispr1
crispr-analysis1
crispr-cas1
ctat1
cutandrun1
cutandrun-seq1
cutandtag1
cutandtag-seq1
CUTnRUN1
cytometry1
data-independent-proteomics1
ddbj1
de-identification1
decontamination1
deep-variant1
demo1
denovo1
deseq21
dia1
dia-proteomics1
diagnostics1
differential-abundance1
dna-methylation1
dot-plot1
download1
dualrna-seq1
eccdna1
ecdna1
elementbiosciences1
em-seq1
emergen_validated1
ena1
epigenome1
Epigenomics1
epitope1
epitope-prediction1
eukaryotes1
evolution1
evolutionary-tree1
extrachromosomal-circular-dna1
facs-sorting1
FastQC1
filter1
fish1
function1
fusion1
fusion-genes1
GC-MS1
gene-expression1
gene-fusion1
generic1
genome1
genome-annotation1
genomics-visualization1
genotype1
geo1
Germline1
ggbio1
gnomad1
google1
gro-seq1
gsea1
HiC1
hicar1
hla1
hla-typing1
horizontal-gene-transfer1
host-pathogen1
hybrid-assembly1
identification1
image-analysis1
image-segmentation1
imaging1
immcantation1
immunology1
immunorepertoire1
imputation1
iontorrent1
isoseq1
isoseq-31
ITS1
iwc1
k-mer1
kallisto1
kmer1
kmer-counting1
kmer-frequency-count1
kraken21
krona1
label-free-quantification1
last1
LC-MS1
lfq1
limma1
linked-reads1
low-pass-sequencing1
macs21
mapping1
MARS-seq1
mass-spec1
metagenomes1
metaMS1
metatranscriptomics1
methyl-seq1
mhc1
mhc-binding-prediction1
microarray1
minimal-example1
mnase-seq1
molecular-pixelation1
molecularcartography1
mpxv1
ms11
ms21
Multi-omics1
MultiQC1
name:amplicon1
name:single-cell1
nanostring1
nanostringnorm1
nascent1
natural-products1
nucleosome1
nucleosome-maps1
nucleosome-positioning1
optitype1
oxford-nanopore1
pacbio1
pairwise-alignment1
pangenome1
pathogen1
pathogen-genomics1
pbat1
peptides1
personalized-medicine1
phasing1
phylogenetic-placement1
phylogenetics1
phylogeny1
pixelator1
pixelgen-technologies1
population-genetics1
pox1
pre-processing1
pro-seq1
Profiling1
prokaryotes1
protein-databases1
protein-fold-prediction1
protein-folding1
protein-sequences1
protein-structure1
proteins1
pypgatk1
QC1
qiime21
quantseq1
rare-disease1
readmapping1
repseq1
rna-rbp-interactions1
rrbs1
rrna1
SAMTools1
SARS-CoV-21
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
splicing1
sra1
structural-variants1
Supernova1
synapse1
synteny1
tama1
target-panels1
taxonomies1
tidyverse1
tmt1
training1
transcription1
transcriptional-dynamics1
tree1
trimming1
tss1
ultra1
umi1
umis1
unique-molecular-identifier1
variant-annotation1
viral1
viral-integration1
Virology1
viruses1
virusintegrationfinder1
wes1
WGS1
whole-exome-sequencing1
whole-genome-alignment1
whole-genome-sequencing1
worflow1
xcms1
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Submitter
WorkflowHub Bot146
Space
nf-core74
146
Workflows visible to you, out of a total of 146
Analysis of Chromosome Conformation Capture data (Hi-C)
A pipeline to investigate horizontal gene transfer from NGS data
Pipeline for screening for functional components of assembled contigs
Type: Nextflow
Creators: Jasmin Frangenberg, Anan Ibrahim, James A. Fellows Yates
Submitter: WorkflowHub Bot
Pipeline to fetch metadata and raw FastQ files from public databases
fgbio Best Practices FASTQ to Consensus Pipeline
A fully reproducible and state of the art epitope prediction 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
Dual RNA-seq pipeline
Differential abundance analysis
A pipeline to identify (and remove) certain sequences from raw genomic data. Default taxa to identify (and remove) are Homo and Homo sapiens. Removal is optional.
