Snakemake Wrappers
0.75.0
Wrappers and Meta-Wrappers
Wrappers
ADAPTERREMOVAL
ARRIBA
ART
BAMTOOLS
BBTOOLS
BCFTOOLS
BEDTOOLS
BENCHMARK
BIOBAMBAM2
BISMARK
BLAST
BOWTIE2
BUSCO
BWA
BWA-MEM2
CAIROSVG
CLUSTALO
CUTADAPT
DADA2
DEEPTOOLS
DEEPVARIANT
DELLY
DIAMOND
EPIC
FASTP
FASTQ_SCREEN
FASTQC
FGBIO
FILTLONG
FREEBAYES
GATK
GATK3
GATK3 BASERECALIBRATOR
GATK3 INDELREALIGNER
GATK3 PRINTREADS
GATK3 REALIGNERTARGETCREATOR
GDC-API
GDC-CLIENT
GENOMEPY
GRIDSS
HAP.PY
HISAT2
HMMER
HOMER
IGV-REPORTS
INFERNAL
JANNOVAR
KALLISTO
LAST
LOFREQ
MACS2
MAPDAMAGE2
MINIMAP2
MOSDEPTH
MSISENSOR
MULTIQC
NANOSIM-H
NEXTFLOW
NGS-DISAMBIGUATE
OPEN-CRAVAT
OPTITYPE
PALADIN
PBMM2
PEAR
PICARD
PINDEL
PLASS
PRESEQ
PRIMERCLIP
PROSOLO
PTRIMMER
PYFASTAQ
QUALIMAP
RASUSA
RAZERS3
REBALER
REFERENCE
REFGENIE
RUBIC
SALMON
SAMBAMBA
SAMTOOLS
SEQTK
SHOVILL
SICKLE
SNP-MUTATOR
SNPEFF
SNPSIFT
SOURMASH
SRA-TOOLS
STAR
STRELKA
STRLING
SUBREAD
TABIX
TRANSDECODER
TRIM_GALORE
TRIMMOMATIC
TRINITY
TXIMPORT
UCSC
UMIS
UNICYCLER
VARDICT
VARSCAN
VCFTOOLS
VEMBRANE
VEP
VG
WGSIM
Meta-Wrappers
Snakemake Wrappers
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GATK3
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GATK3
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For gatk3, the following wrappers are available:
GATK3 BASERECALIBRATOR
GATK3 INDELREALIGNER
GATK3 PRINTREADS
GATK3 REALIGNERTARGETCREATOR
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v: 0.75.0
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