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edgeR1 FastQC40 MultiQC28 SAMtools23 anndata22 ggplot216 Cutadapt15 SCANPY15 Bowtie 214 fastp14 BWA13 JBrowse13 scikit-learn13 Bandage12 BUSCO12 BEDTools11 Minimap211 mothur11 QUAST11 BamTools9 BCFtools9 DeepTools9 FreeBayes9 kraken29 NanoPlot8 seqtk8 taxonomy_krona_chart8 Trim Galore8 BLAST7 Galaxy Image Analysis7 gffread7 MaxQuant7 msConvert7 STAR7 Trimmomatic7 DESeq26 GEMINI6 HISAT26 MACS6 MuSiC Deconvolution6 Open Babel6 scikit-image6 DropletUtils5 FeatureCounts5 Flye5 RSeQC5 SRA Software Toolkit5 StringTie5 Unicycler5 annotatemyids4 Biopython4 bx-python4 Galactic Circos4 gffcompare4 GOseq4 KrakenTools4 MAFFT4 MEGAHIT4 MetaPhlAn4 Racon4 Salmon4 Stacks4 Unipept4 UniProt4 Bracken3 Bwa-mem23 Cardinal3 Clustal 2 (Clustal W, Clustal X)3 COMBAT-TB Workbench3 Falco3 GenomeScope 2.03 Gromacs3 humann3 InterProScan (EBI)3 Merqury3 MSstats3 MSstatsTMT3 Newick Utilities3 Prokka3 pyGenomeTracks3 R3 snippy3 UMI-tools3 Vcflib3 Bakta2 bed to protein map2 Bio3D2 BRAKER32 CellProfiler2 ChEMBL2 chemfp2 compute_sequence_length2 cshl_fastx_reverse_complement2 customProDB2 Diamond2 EGA2 eggNOG-mapper v22 epiScanpy2 export2graphlan2 FastTree2 FASTX-Toolkit2 funannotate2 gfastats2 GOEnrichment2 GraPhlAn2 Helixer2 HUMAnN22 limma2 lofreq2 MAKER2 MDAnalysis2 Medaka2 MEME2 MetaNovo2 metaQuantome2 metaspades2 miniasm2 NCBI Resources2 NGSUtils2 OMArk2 The Protein Data Bank (PDB)2 QIIME2 RDKit2 Recentrifuge2 RepeatMasker2 sceasy2 SeqCode2 Seurat2 SnapATAC2 snpEff2 SortMeRNA2 staramr2 tb-profiler2 tbl2gff32 Workflow4Metabolomics2 xcms2 ABRicate1 AmberTools1 antiSMASH1 Apollo1 AUGUSTUS1 blockbuster1 Bowtie1 ChemicalToolbox1 ChIPpeakAnno1 ChiRA1 Circos1 Clair31 clusterProfiler1 CNVkit1 Combine Metaphlan and HUMAnN1 CoverM1 dada21 diaPASEF1 EGSEA1 European Nucleotide Archive (ENA)1 ete1 ewastools1 FEELnc1 fgsea1 Filtlong1 FlashLFQ1 FREEC1 GAEVAL1 GECKO1 g:Profiler1 Heinz1 HiCExplorer1 The Immune Epitope Database (IEDB)1 Integron Finder1 iqtree1 ISEScan1 IsoformSwitchAnalyzeR1 IWTomics1 kraken-biom1 Krona1 LASTZ1 lotus21 MAGeCK1 MALDIquant1 Matchms1 MethylDackel1 MFAssignR1 miRDeep21 multiGSEA1 mzToSQLite1 OBITools1 OptiType1 pangolin1 pathview1 Peakachu1 PfamScan1 phyloseq1 pilon1 PlasFlow1 PlasmidFinder1 Polypolish1 Prodigal1 Proteinortho1 PubMed1 purge_dups1 PyTorch1 QualiMap1 QuickTree1 RaceID1 RAMClustR1 RapidNJ1 RAxML1 RCAS1 RED1 RIAssigner1 rnaQUAST1 SALSA1 scater1 Seq2HLA1 shovill1 sinto1 Smudgeplots1 SNAP1 SPAdes1 SuCOS1 Targetfinder.org1 TransDecoder1 TRANSIT1 trimAl1 Trinity1 Trinotate1 VarScan1 varVAMP1 VelvetOptimiser1 WoLF PSORT1 More...

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