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Snakemake wrappers

Homepage Plugin catalog Workflow catalog

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Snakemake wrappers

Homepage Plugin catalog Workflow catalog

Wrappers

Bio
- ADAPTERREMOVAL
- AGAT
- ALIGNOTH
- ARRIBA
- ART
- ASSEMBLY-STATS
- BAMTOOLS
- BARRNAP
- BAZAM
- BBTOOLS
- BCFTOOLS
- BEDTOOLS
- BELLEROPHON
- BENCHMARK
- BGZIP
- BIOBAMBAM2
- BISMARK
- BLAST
- BOWTIE2
- BUSCO
- BUSTOOLS
- BWA
- BWA-MEM2
- BWA-MEME
- BWA-MEMX
- BWAMETH
- CHOPPER
- CINSIGNATUREQUANTIFICATION
- CLUSTALO
- CNV_FACETS
- CNVKIT
- COOLPUP.PY
- COOLTOOLS
- CUTADAPT
- DADA2
- DEEPTOOLS
- DEEPVARIANT
- DELLY
- DESEQ2
- DIAMOND
- DRAGMAP
- EGA
- EMU
- ENCODE_FASTQ_DOWNLOADER
- ENHANCED VOLCANO
- ENTREZ
- EPIC
- FALCO
- FASTP
- FASTQ_SCREEN
- FASTQC
- FASTTREE
- FGBIO
- FILTLONG
- FREEBAYES
- GALAH
- GATK
- GATK3
- GDC-API
- GDC-CLIENT
- GENEFUSE
- GENOMEPY
- GENOMESCOPE
- GENOMETOOLS
- GFATOOLS
- GFFREAD
- GOLEFT
- GRIDSS
- GRIT
- GSEAPY
- HAP.PY
- HIFIASM
- HISAT2
- HMMER
- HOMER
- IGV-REPORTS
- IMMUNEDECONV
- INFERNAL
- JANNOVAR
- JASMINESV
- JELLYFISH
- KALLISTO
- LAST
- LIFTOFF
- LOFREQ
- MACS2
- MAGECK
- MAGECKFLUTE
- MANTA
- MAPDAMAGE2
- MASHMAP
- MEGAHIT
- MEHARI
- MERQURY
- MERYL
- METHYLDACKEL
- MICROPHASER
- MINIMAP2
- MLST
- MMSEQS2
- MOFA2
- MOSDEPTH
- MSISENSOR
- MTNUCRATIOCALCULATOR
- MULTIQC
- MUSCLE
- NANOSIM
- NGS-DISAMBIGUATE
- NGSBITS
- NGSCHECKMATE
- NGSDERIVE
- NONPAREIL
- OPEN-CRAVAT
- OPTITYPE
- ORTHANQ
- PALADIN
- PANDORA
- PBMARKDUP
- PBMM2
- PCAEXPLORER
- PEAR
- PICARD
- PINDEL
- PLASS
- PORECHOP_ABI
- PRESEQ
- PRETEXT
- PRIMERCLIP
- PRINSEQ++
- PROSOLO
- PTRIMMER
- PURGE_DUPS
- PYFAIDX
- PYFASTAQ
- PYROE
- PYTRF
- QUALIMAP
- QUAST
- RAGTAG
- RASUSA
- RAZERS3
- RBT
- REBALER
- REFERENCE
- REFGENIE
- RSEM
- RSEQC
- RUBIC
- SALMON
- SALSA2
- SAMBAMBA
- SAMSHEE
- SAMTOOLS
- SEQKIT GENERIC WRAPPER
- SEQTK
- SEQUALI
- SEX.DETERRMINE
- SHOVILL
- SICKLE
- SNIFFLES
- SNP-MUTATOR
- SNPEFF
- SNPSIFT
- SORTMERNA
- SOURMASH
- SPADES
- SRA-TOOLS
- STAR
- STRELKA
- STRLING
- SUBREAD
- SWARM
- TABIX
- TAXONKIT GENERIC WRAPPER
- TMB
- TOULLIGQC
- TRANSDECODER
- TRF
- TRIM_GALORE
- TRIMMOMATIC PE
- TRINITY
- TXIMPORT
- UCSC
- UMIS
- UNICYCLER
- VARDICT
- VARLOCIRAPTOR
- VARSCAN
- VCF2MAF
- VCFTOOLS
- VEMBRANE
- VEP
- VERIFYBAMID
- VG
- VSEARCH
- WGSIM
- WHATSHAP
Geo
Phys
- ROOT
Utils
- ARIA2
- CAIROSVG
- CSVTK
- DATAVZRD
- GO-YQ
- JQ
- LIBARCHIVE
- MILLER
- NEXTFLOW
- RIPGREP
- SD
- SED
- XSV

Meta-Wrappers

Bio

Development

Contributing
Changelog

Snakemake wrappers

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Bio

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MAGECK

For mageck, the following wrappers are available:

MAGECK TEST