Snakemake Wrappers
0.61.0
Wrappers
ARRIBA
ART
BAMTOOLS
BCFTOOLS
BEDTOOLS
BISMARK
BOWTIE2
BUSCO
BWA
CAIROSVG
CLUSTALO
CUTADAPT
DEEPVARIANT
DELLY
EPIC
FASTP
FASTQ_SCREEN
FASTQC
FGBIO
FILTLONG
FREEBAYES
GATK
GATK3
GATK3 BASERECALIBRATOR
GATK3 INDELREALIGNER
GATK3 PRINTREADS
GATK3 REALIGNERTARGETCREATOR
GDC-API
GDC-CLIENT
HAP.PY
HISAT2
HMMER
HOMER
IGV-REPORTS
INFERNAL
JANNOVAR
KALLISTO
LAST
LOFREQ
MINIMAP2
MSISENSOR
MULTIQC
NANOSIM-H
NGS-DISAMBIGUATE
OPTITYPE
PALADIN
PEAR
PICARD
PINDEL
PLASS
PRESEQ
PRIMERCLIP
PROSOLO
PTRIMMER
PYFASTAQ
RAZERS3
REFERENCE
REFGENIE
RUBIC
SALMON
SAMBAMBA
SAMTOOLS
SEQTK
SHOVILL
SICKLE
SNP-MUTATOR
SNPEFF
SNPSIFT
SOURMASH
SRA-TOOLS
STAR
STRELKA
TABIX
TRANSDECODER
TRIM_GALORE
TRIMMOMATIC
TRINITY
TXIMPORT
UCSC
UMIS
VARSCAN
VCFTOOLS
VEP
Snakemake Wrappers
Docs
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GATK3
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GATK3
ΒΆ
For gatk3, the following wrappers are available:
GATK3 BASERECALIBRATOR
GATK3 INDELREALIGNER
GATK3 PRINTREADS
GATK3 REALIGNERTARGETCREATOR