Workflows

FastQC45 MultiQC29 SAMtools24 SCANPY22 Cutadapt17 QUAST16 Bowtie 214 BWA14 ggplot214 BEDTools13 BUSCO13 fastp13 scikit-learn13 Bandage12 JBrowse12 mothur11 MaxQuant10 Minimap210 BamTools9 DeepTools9 DropletUtils9 FreeBayes9 kraken29 msConvert9 BCFtools8 NanoPlot8 seqtk8 Trimmomatic8 Flye7 HISAT27 MACS7 STAR7 taxonomy_krona_chart7 BLAST6 FeatureCounts6 Open Babel6 RSeQC6 Trim Galore6 Unipept6 UniProt6 COMBAT-TB Workbench5 DESeq25 Galactic Circos5 GEMINI5 gffread5 Merqury5 Prokka5 Salmon5 StringTie5 Unicycler5 annotatemyids4 Bwa-mem24 bx-python4 epiScanpy4 Galaxy Image Analysis4 GenomeScope 2.04 gffcompare4 KrakenTools4 MEGAHIT4 metaQuantome4 MSstatsTMT4 MuSiC suite: PoPMuSiC, HoTMuSiC, and SNPMuSiC4 pyGenomeTracks4 snippy4 SRA Software Toolkit4 Stacks4 Biopython3 Bracken3 Cardinal3 Clustal 2 (Clustal W, Clustal X)3 GOseq3 Gromacs3 HUMAnN23 InterProScan (EBI)3 MetaPhlAn3 MSstats3 Newick Utilities3 Racon3 scikit-image3 tb-profiler3 anndata2 Bakta2 bed to protein map2 Bio3D2 BioRuby2 CellProfiler2 ChEMBL2 chemfp2 compute_sequence_length2 cshl_fastx_reverse_complement2 customProDB2 Diamond2 diaPASEF2 eggNOG-mapper v22 FastTree2 FlashLFQ2 funannotate2 gfastats2 GOEnrichment2 humann2 limma2 lofreq2 MAFFT2 MAKER2 MDAnalysis2 Medaka2 MetaNovo2 metaspades2 mzToSQLite2 NGSUtils2 The Protein Data Bank (PDB)2 pilon2 purge_dups2 QIIME2 R2 RAxML2 RDKit2 Recentrifuge2 RepeatMasker2 SALSA2 SeqCode2 snpEff2 staramr2 tbl2gff32 UMI-tools2 Vcflib2 WoLF PSORT2 Workflow4Metabolomics2 xcms2 ABRicate1 AmberTools1 antiSMASH1 Apollo1 AUGUSTUS1 blockbuster1 Bowtie1 ChemicalToolbox1 ChIPpeakAnno1 ChiRA1 Circos1 Clair31 clusterProfiler1 dada21 EGA1 EGSEA1 European Nucleotide Archive (ENA)1 ewastools1 export2graphlan1 FASTX-Toolkit1 FEELnc1 fgsea1 Filtlong1 FREEC1 GAEVAL1 Galaxy1 GATK1 GECKO1 g:Profiler1 GraPhlAn1 Heinz1 Helixer1 HiCExplorer1 Integron Finder1 iqtree1 ISEScan1 IsoformSwitchAnalyzeR1 IWTomics1 Krona1 LASTZ1 lotus21 MAGeCK1 MALDIquant1 Matchms1 MEME1 MethylDackel1 miniasm1 miRDeep21 NCBI Resources1 Nextflow1 OBITools1 OMArk1 pangolin1 pathview1 Peakachu1 PfamScan1 phyloseq1 PlasFlow1 PlasmidFinder1 Polypolish1 Prodigal1 Proteinortho1 PYLFIRE1 pymethylprocess1 QualiMap1 RaceID1 RAMClustR1 RapidNJ1 RCAS1 RED1 RIAssigner1 rnaQUAST1 scater1 shovill1 Smudgeplots1 SNAP1 SortMeRNA1 SPAdes1 SuCOS1 Targetfinder.org1 TransDecoder1 TRANSIT1 Trinity1 Trinotate1 VarScan1 VelvetOptimiser1 More...

Galaxy397 Nextflow100 Common Workflow Language32 COMPSs23 Snakemake5 Jupyter1 KNIME1 My type1 Taverna1 More...

GTN308 Galaxy307 Proteomics51 Transcriptomics36 assembly26 nf-core22 covid-1920 ecology18 microbiome17 genome-annotation16 single-cell14 statistics14 variant-analysis14 name:transcriptomics13 name:singlecell12 name:training11 computational-chemistry10 covid19.galaxyproject.org10 epigenetics10 metagenomics10 Name:clinicalmp10 evolution9 introduction9 LG-WF9 ml9 galaxy-interface8 imaging7 cancer6 genome-assembly6 rna6 rna-seq6 SARS-CoV-26 UX6 variant-calling6 ARTIC5 climate5 Metabolomics5 Name:collection5 Name:iwc5 Name:microgalaxy5 Name:pathogfair5 pediatric5 sequence-analysis5 visualisation5 Cheminformatics4 earth-system4 HiFi4 name:BY-COVID4 name:scRNA-seq4 name:single-cell4 Ocean4 synthetic-biology4 10x-genomics3 10xgenomics3 adna3 annotation3 cat3 dna3 fastq3 genome_assembly3 hifiasm3 name:trajectory_analysis3 nanopore3 ONT3 Pangeo3 test3 10x2 16s2 amplicon-sequencing2 ancientdna2 atac-seq2 binning2 bisulfite-sequencing2 CellProfiler2 chip2 chip-seq2 chromatin-accessibiity2 chromatin-immunoprecipitation2 classification2 contributing2 cosifer2 covid192 crispr2 denovo-assembly2 dna-methylation2 GC-MS2 hla2 hla-typing2 illumina2 image-processing2 immunology2 long-read-sequencing2 macs22 Marineomics2 methyl-seq2 microgalaxy2 name:data-management2 nanopore-sequencing2 optitype2 PacBio2 pathogen-genomics2 peak-calling2 personalized-medicine2 population-genetics2 rrna2 spatial2 vgp2 18s1 alevin1 alignment1 amplicon1 ancient-dna1 ancient-dna-analysis1 arabidopsis1 asaim1 ATACseq1 b-cell1 bacterial-genomes1 big-data1 Bioinformatics1 bustools1 cage1 cage-seq1 cageseq-data1 cellranger1 Chowell_train_test1 clinical1 clustering1 community-detection1 consensus1 copernicus1 coprolite1 covd-191 crispr-analysis1 crispr-cas1 crispr-cas91 cutandrun1 cutandrun-seq1 cutandtag1 cutandtag-seq1 data-independent-proteomics1 deep-variant1 deeplearning1 denovo1 dia-proteomics1 edna1 em-seq1 emergen_validated1 epigenome1 epigenomics1 example1 Exposomics1 Expospomics1 fish1 fnn1 Fungi1 fusion1 fusion-genes1 gatk41 gene-expression1 gene-fusion1 genome1 Genomics1 geosciences1 google1 guide-seq1 hCNV1 hybrid-assembly1 Imagerecognition1 immcantation1 immune1 introductions1 iontorrent1 Isoseq1 its1 iwc1 iwtomics1 k-mer1 kallisto1 kmer1 kmer-counting1 kmer-frequency-count1 linked-reads1 Llr6_model1 Logistic_regression_model1 Loris1 Lotus21 Ludwig1 mass-spectrometry1 MaxQuant1 metabarcoding1 metagenomes1 microscopy1 MIRACUM1 mirna1 Mito-flash1 Mitochondrion_tracking1 Mnist1 molecularcartography1 moleculardynamics1 name:circos1 name:deconvolution1 Name:erga1 name:GTN1 Name:nanopore1 name:single_cell1 name:viz1 networks1 ngs1 ngs-pipeline1 NormalyzerDE1 oxford-nanopore1 Pathogen1 pbat1 peptides1 PubMed1 PubTator1 purge_dups1 Qcxms1 qiime1 qiime21 Referencegenome1 regression1 RetroPath1 reverse1 Reviewed1 rnaseq1 rrbs1 samtools1 Scatac-seq1 screening1 SDRF1 segmentation1 sempi31 shotgun-ms1 small-rna1 smrna-seq1 spatial-transcriptomics1 st1 star-solo1 supernova1 taxonomic-classification1 taxonomic-profiling1 text-mining1 Tuberculosis1 umi1 umis1 unique-molecular-identifier1 variant-annotation1 Vgp_curated1 viral1 virus1 visium1 worflow1 More...

Helena Rasche351 WorkflowHub Sandbox Bot72 Finn Bacall53 Raül Sirvent20 Stian Soiland-Reyes15 Laura Rodriguez-Navas12 Simone Leo10 Jane Doe10 Ignacio Eguinoa8 Douglas Lowe6 Stuart Owen3 Bert Droesbeke3 Johan Gustafsson3 Robin Long2 Kiran K Telukunta1 Kaushik Ghose1 Hervé Ménager1 Alban Gaignard1 Luca Pireddu1 JEAN-MARIE BUREL1 Kim Philipp Jablonski1 Alexandra Has1 Paolo Uva1 Nandan Deshpande1 Terry Bertozzi1 Eli Chadwick1 yi.sun@embl.de1 More...

Galaxy Training Network351 nf-core89 Testing56 VIB-ELIXIR-BE12 Workflow Hub Administration11 MGnify9 LifeMonitorDev9 Galaxy COVID-198 iPC: individualizedPaediatricCure5 Australian BioCommons Dev5 IWC Workflows4 Demonstrator #73 test3 My team3 UX study leave2 UX study koehorst2 Seven Bridges Open Workflows1 V-pipe1 Team11 ux study team1 UXStudy1 Testing_proteomics1 IGG-Bioinfo1 Eli's test team1 EMBL Bioimage analysis service1 More...

General444

Raül Sirvent9 Finn Bacall7 Laura Rodriguez-Navas6 Ignacio Eguinoa6 Genís Bayarri6 Alexandra Has6 José Mª Fernández4 Stian Soiland-Reyes3 Kiran K Telukunta1 Kaushik Ghose1 Alban Gaignard1 Mar Batlle1 Jasper Koehorst1 Georgie Samaha1 Nandan Deshpande1 Terry Bertozzi1 yi.sun@embl.de1 More...

nf-core20 INB collection5 Test Collection1 IDR1

Bioimaging1 Computer science1 Marine biology1 Metagenomics1 Sequence assembly1

Genome assembly2 Phylogenetic footprinting1 Sequence clustering1

Stable27 Work-in-progress15

Not available8 Passing3 All failing1