Workflows

MultiQC52 FastQC46 SAMtools40 fastp29 anndata28 Cutadapt23 BWA22 BEDTools21 Bowtie 221 ggplot221 BUSCO19 SCANPY19 Minimap217 Bandage16 JBrowse15 kraken215 BCFtools14 QUAST13 scikit-learn13 taxonomy_krona_chart13 BamTools12 FreeBayes11 gfastats11 mothur11 Trimmomatic11 DeepTools10 gffread10 lofreq10 MACS10 seqtk10 STAR10 BLAST9 MaxQuant9 msConvert9 NanoPlot9 Open Babel9 bx-python8 FASTX-Toolkit8 Galaxy Image Analysis8 scikit-image8 StringTie8 Trim Galore8 DESeq27 GenomeScope 2.07 HISAT27 Merqury7 snpEff7 Bracken6 Flye6 GEMINI6 Gromacs6 MuSiC Deconvolution6 QualiMap6 SRA Software Toolkit6 Biopython5 Compleasm5 DropletUtils5 FeatureCounts5 gffcompare5 GOseq5 KrakenTools5 MAFFT5 MEGAHIT5 Recentrifuge5 RSeQC5 ToolDistillator5 Unicycler5 Unipept5 UniProt5 annotatemyids4 biomformat4 Bwa-mem24 Clustal 2 (Clustal W, Clustal X)4 Falco4 Galactic Circos4 InterProScan (EBI)4 MAPseq4 Medaka4 MetaPhlAn4 MSstats4 Newick Utilities4 PRINSEQ4 pyGenomeTracks4 Racon4 RDKit4 Salmon4 Stacks4 Vcflib4 Workflow4Metabolomics4 xcms4 AmberTools3 Bakta3 bed to protein map3 Cardinal3 ChiRA3 COMBAT-TB Workbench3 compute_sequence_length3 customProDB3 eggNOG-mapper v23 FastTree3 Helixer3 humann3 MAKER3 MetaNovo3 metaspades3 MSstatsTMT3 OMArk3 Prokka3 purge_dups3 R3 SeqCode3 snippy3 UMI-tools3 ABRicate2 ampvis2 Bio3D2 BRAKER32 CellProfiler2 CheckM2 ChEMBL2 chemfp2 ChemicalToolbox2 Clair32 cmsearch-deoverlap2 CoverM2 cshl_fastx_reverse_complement2 Cufflinks2 Diamond2 edgeR2 EGA2 epiScanpy2 export2graphlan2 FEELnc2 funannotate2 GOEnrichment2 GraPhlAn2 HiCExplorer2 HUMAnN22 The Immune Epitope Database (IEDB)2 Infernal2 Integron Finder2 iqtree2 ISEScan2 limma2 MDAnalysis2 MEME2 Meryl2 metaQuantome2 MFAssignR2 miniasm2 NCBI Resources2 NGSUtils2 OptiType2 The Protein Data Bank (PDB)2 PlasmidFinder2 Prodigal2 QIIME2 RepeatMasker2 sceasy2 Seq2HLA2 Seurat2 shovill2 SnapATAC2 SnpSift2 SortMeRNA2 staramr2 SuCOS2 tb-profiler2 tbl2gff32 VarScan2 vcfanno2 Variant Effect Predictor (VEP)2 iVar1 antiSMASH1 Apollo1 AUGUSTUS1 Binette1 blockbuster1 Bowtie1 cBioPortal1 ChIPpeakAnno1 Circos1 clusterProfiler1 CNVkit1 Combine Metaphlan and HUMAnN1 CONCOCT1 dada21 dastool1 diaPASEF1 dRep1 EGSEA1 European Nucleotide Archive (ENA)1 ete1 ewastools1 fgsea1 Filtlong1 FlashLFQ1 FREEC1 GAEVAL1 GECKO1 g:Profiler1 GTDB-Tk1 Heinz1 IsoformSwitchAnalyzeR1 iVar1 IWTomics1 kraken-biom1 Krona1 LASTZ1 lotus21 MAGeCK1 MALDIquant1 Matchms1 MaxBin1 MetaBAT 21 MethylDackel1 miRDeep21 multiGSEA1 mzToSQLite1 OBITools1 pangolin1 pathview1 Peakachu1 PfamScan1 phyloseq1 pilon1 PlasFlow1 Polypolish1 Proteinortho1 PubMed1 PyTorch1 QuickTree1 RaceID1 RAMClustR1 RapidNJ1 RAxML1 RCAS1 RED1 RIAssigner1 rnaQUAST1 SALSA1 scater1 SemiBin1 sinto1 Smudgeplots1 SNAP1 snipit1 SPAdes1 Targetfinder.org1 TransDecoder1 TRANSIT1 trimAl1 Trinity1 Trinotate1 VAPOR1 varVAMP1 VelvetOptimiser1 WoLF PSORT1 More...

Galaxy492

Galaxy369 GTN364 Transcriptomics34 Proteomics27 Ecology23 microbiome21 Assembly19 genome-annotation17 variant-analysis16 Name:neoantigen14 Statistics14 epigenetics13 Name:microgalaxy12 name:single-cell12 single-cell12 name:training11 Computational-chemistry10 Introduction10 Metagenomics10 Name:clinicalmp10 Lg-wf9 Ml9 vgp9 Galaxy-interface8 imaging8 Name:singlecell8 Name:transcriptomics8 Ocean8 Earth-system7 Amplicon6 Climate6 covid-196 Metabolomics6 Mgnify_amplicon6 Sequence-analysis6 evolution5 Genomics5 name:Collection5 Name:iwc5 Name:pathogfair5 Virology5 Visualisation5 ABRomics4 bacterial-genomics4 BY-COVID4 Flexynesis4 generic4 Machine_learning4 Name:deconv-eval4 Name:scrna-seq4 pangeo4 scATAC-seq4 Cheminformatics3 covid19.galaxyproject.org3 EOSC4Cancer3 hCNV3 Name:by-covid3 Name:trajectory_analysis3 rna3 synthetic-biology3 textcleaning3 4culture2 ARTIC2 Braker32 BUSCO2 CellProfiler2 ChIP-seq2 Classification2 Contributing2 culturedata2 Digitalhumanities2 Ecoregionalization2 FAIR workflows2 fasta2 FASTQ2 GC-MS2 Genomeannotation2 hla2 Iedb2 Jbrowse2 Marineomics2 Microgalaxy2 MIRACUM2 mpxv2 name:public-data2 Name:seurat2 openrefine2 paired-end2 quality2 Reviewed2 RNASEQ2 Segmentation2 tabulardata2 10X1 Alternative splicing1 alternative-splicing1 AMR1 AMR-detection1 Annotation1 annotation pipeline1 antibiotic-resistance1 antimicrobial resistance1 antimicrobial-resistance-genes1 Argo1 Asaim1 ATACseq1 Augustus1 Beacon1 bgc1 Big-data1 Biodiversity1 Bioimage1 bioimaging1 cancer1 Chinese-language1 ChIP1 Chowell_train_test1 Clustering1 CNVkit1 Comparison1 copernicus1 Cut&run1 CUTnRUN1 Deep_learning1 Deeplearning1 Dh1 Diff1 Electrophoresis_gel1 emergen_validated1 Environmental monitoring1 eukaryotic genome1 Exposomics1 Expospomics1 Fnn1 Formulaassignment1 Fungi1 gene prediction1 GeneMark-ET1 Geosciences1 Habitat fragmentation1 Helixer1 Hi-C1 Humanities1 IDR1 imageanaylsis1 Imagerecognition1 Introductions1 isoform switching1 Iwtomics1 Land cover classification1 Landscape ecology1 Llr6_model1 Logistic_regression_model1 Loris1 Lotus21 Ludwig1 Marine omics1 Metaplasmidome1 Mito-flash1 Mitochondrion_tracking1 mlxv1 Mnist1 Moleculardynamics1 mpvx1 Multi-omics1 name:amplicon1 Name:bacsnp1 Name:baculoviridae1 Name:baculovirus1 Name:band_intensity1 Name:bioimaging1 Name:circos1 Name:data-management1 Name:deconvolution1 name:ERGA1 Name:gtn1 Name:naldv1 Name:nanopore1 Name:qupath1 Name:sequenceanalysis1 Name:single_cell1 Name:viz1 Noiseestimation1 ONT1 pathogen1 Plant1 pox1 protein evidence1 Pseudobulk1 Published1 Pubmed1 Pubtator1 QCxMS1 Recalibration1 referencegenome1 Regression1 rna-seq1 Roi1 Sempi31 Sentinel-21 Smfish1 synthetic data1 Tabpfn1 taxonomy-assignment1 Text1 Text_mining1 Text-mining1 training1 trimming1 tuberculosis1 Vegetation1 Vegetation index1 VGP_curated1 visualization1 Voronoi1 workflow1 yolo1 More...

GTN Bot362 WorkflowHub Bot94 Cristóbal Gallardo9 Helena Rasche4 Wolfgang Maier3 Anton Nekrutenko3 Timon Schlegel3 Marie Jossé3 Pavankumar Videm2 Khaled Jum'ah2 Diana Chiang Jurado2 Pauline Seguineau2 Bert Droesbeke1 Saskia Hiltemann1 Daniela Schneider1 More...

Galaxy Training Network376 Intergalactic Workflow Commission (IWC)94 usegalaxy-eu22

Galaxy492 ELIXIR25 Independent Teams3 EOSC4Cancer3

Wolfgang Maier10 Marie Jossé10 Romane Libouban8 Anthony Bretaudeau7 Delphine Lariviere7 Paul Zierep6 Yvan Le Bras3 Pavankumar Videm3 Cristóbal Gallardo3 Peter van Heusden2 Helena Rasche2 Pierre Marin2 Clea Siguret2 Pauline Seguineau2 Krzysztof Poterlowicz1 Willem de Koning1 Anne Fouilloux1 Alexandre Cormier1 Laura Leroi1 Anton Nekrutenko1 Jasper Ouwerkerk1 Saskia Hiltemann1 Khaled Jum'ah1 Bérénice Batut1 Eli Chadwick1 Timon Schlegel1 Saim Momin1 Wendi Bacon1 Patrick Austin1 More...

Workflows in EuroScienceGateway23 BY-COVID related workflows8 Freely accessible ready to use global infrastructure and workflows for SARS-CoV-2 monitoring6 Vertebrate Genomes Pipelines (VGP) workflows3 Biodiversity & ecology workflows2

Genetic variation6 Biomedical science4 Ecology3 Oncology3 Bioinformatics2 Copy number variation2 Transcriptomics2 Virology2 Biodiversity1 Data visualisation1 Marine biology1 Microbiology1 More...

Variant calling3 Annotation2 Copy number variation detection2 Data filtering2 SNP annotation2 Variant classification2 Variant filtering2 Visualisation2 Antimicrobial resistance prediction1 Copy number estimation1 Data sorting1 Gene prediction1 Genetic mapping1 Genome annotation1 Read mapping1 Sequence alignment1 Sequence assembly1 Sequencing quality control1 Structural variation detection1 Text mining1 Transcriptome assembly1 More...

Stable34 Work-in-progress7