RCAC Biocontainers
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Frequently Asked Questions
Singularity
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Abacas
Abismal
Abricate
Abyss
Actc
Advntr
Afplot
Afterqc
Agat
Alfred
Alien-hunter
Alignstats
Allpathslg
Alphafold
Amptk
Ananse
Anchorwave
ANGSD
Annogesic
ANNOVAR
Antismash
Anvio
Any2fasta
Arcs
ASGAL
Assembly-stats
Atac-seq-pipeline
Ataqv
aTRAM
Atropos
Augur
AUGUSTUS
Bactopia
Bali-phy
Bamgineer
Bamliquidator
Bam-readcount
Bamsurgeon
BamTools
Bamutil
Barrnap
Basenji
Bbmap
Bbtools
Bcftools
Bcl2fastq
Beagle
BEAST 2
Bedops
Bedtools
Bioawk
Biobambam
Bioconvert
Biopython
Bismark
Blasr
BLAST
BlobTools
Bmge
Bowtie
Bowtie 2
Bracken
BRAKER
Brass
Breseq
BUSCO
Bustools
BWA
Bwameth
Cactus
Cafe
Canu
Ccs
Cdbtools
Cd-hit
Cegma
Cellbender
Cellphonedb
Cellranger
Cellranger-arc
Cellranger-atac
CellRank
CellRank-krylov
cellSNP
Celltypist
Centrifuge
Checkm-genome
Chewbbaca
Chromap
CICERO
Circexplorer2
Circlator
Circompara2
Circos
CIRIquant
Clair3
Clairvoyante
Clearcnv
Clever-toolkit
Clustalw
CNVkit
Cnvnator
Coinfinder
CONCOCT
Control-freec
Cooler
Coverm
CRISPRCasFinder
Crispresso2
Crispritz
Crossmap
cross_match
Csvtk
Cufflinks
Cutadapt
Cyvcf2
Dbg2olc
Deepbgc
Deepconsensus
Deepsignal2
DeepTools
Deepvariant
Delly
Diamond
Dnaio
Dragonflye
Drep
Dropest
Dsuite
easySFS
Edta
Eggnog-mapper
Emboss
Ensembl-vep
Epic2
Evidencemodeler
Exonerate
Fasta3
FastANI
Fastp
FastQC
Fastq_pair
Fastq-scan
Fastspar
fastStructure
FastTree
FASTX-Toolkit
Filtlong
Flye
Fraggenescan
Fraggenescanrs
Freebayes
Fseq
Funannotate
Fwdpy11
Gadma
Gambit
Gamma
GATK
GATK4
Gemma
Gemoma
GeneMark-ES/ET/EP
Genemarks-2
Genmap
Genomepy
Genomescope2
Genomicconsensus
Genrich
Gfastats
Gffcompare
Gffread
Gimmemotifs
Glimmer
Glimmerhmm
Glnexus
Gmap
goatools
Graphlan
Graphmap
Gridss
Gseapy
GTDB-Tk
Gubbins
Guppy
Hail
Hap.py
Helen
Hicexplorer
Hifiasm
HISAT2
Hmmer
HOMMER
How_are_we_stranded_here
HTSeq
Htslib
Htstream
HUMAnN 3
Hyphy
Idba
IGV
Impute2
Instrain
Intarna
InterProScan
IQ-TREE
Isoseq3
Ivar
Jcvi
Kaiju
Kallisto
Khmer
Kma
Kmc
Jellyfish
KneadData
Kover
Kraken2
KrakenTools
Lambda
Last
Ldsc
Liftoff
Lima
Links
Lofreq
Longqc
Lra
Ltr_finder
Ltrpred
Lumpy-sv
Lyveset
MACS2
Macs3
MAFFT
Mageck
MAKER
Manta
Mapcaller
Marginpolish
Mash
Mashmap
Mashtree
Mauve
Maxbin2
Maxquant
Mcl
Mcscanx
Medaka
Megadepth
Megahit
Megan
Meme
Merqury
Meryl
Metabat
MetaPhlAn 3
Methyldackel
Metilene
Mhm2
MicrobeDMM
Minialign
Miniasm
Minimap2
Minipolish
Miniprot
miRDeep2
Mirtop
Mitofinder
Mlst
Mmseqs2
Mothur
MrBayes
Multiqc
Mummer4
Muscle
Mutmap
Mykrobe
Nanofilt
Nanolyse
Nanoplot
Nanopolish
Ncbi-amrfinderplus
Ncbi-genome-download
Neusomatic
Nextalign
Nextclade
Nextflow
Ngs-bits
Ngsutils
OrthoFinder
Paml
Panacota
Panaroo
Pandaseq
Pandora
Pangolin
PanPhlAn
Clara Parabricks
Parallel-fastq-dump
Parliament2
Parsnp
Pbmm2
Pbptyper
PCAngsd
Peakranger
Pepper_deepvariant
BioPerl
Phd2fasta
Phg
phrap
phred
Picard Tools
Picrust2
Pilon
Pindel
Pirate
Pixy
Plasmidfinder
Platypus
Plink
Plink2
Plotsr
Pomoxis
Popscle
Prinseq
Prodigal
Prokka
Proteinortho
ProtHint
Pullseq
Pvactools
Pyani
Pybedtools
Pybigwig
Pychopper
Pycoqc
Pyensembl
Pyfaidx
Pygenometracks
Pygenomeviz
Pyranges
Pysam
QIIME 2
Qualimap
Quast
QuickMIRSeq
R
Racon
Ragout
Ragtag
Rapmap
Rasusa
Raven-assembler
Raxml
Raxml-ng
Rebaler
Reciprocal Smallest Distance
Recycler
RepeatMasker
RepeatModeler
RepeatScout
Resfinder
Revbayes
rMATS
rmats2sashimiplot
RNAIndel
RNApeg
Rnaquast
Roary
r-rnaseq
RStudio
r-scrnaseq
RSEM
Rseqc
run-dbCAN
rush
Salmon
Sambamba
Samblaster
Samclip
Samplot
Samtools
Scanpy
Scarches
Scgen
Scirpy
scVelo
Scvi-tools
Seidr
Sepp
Seqkit
Seqyclean
Shasta
Shorah
Shortstack
Shovill
Sicer
Sicer2
SignalP
Signalp6
Simug
Skewer
Slamdunk
Smoove
Snakemake
Snap
Snap-aligner
Snaptools
Snippy
Snp-dists
Snpeff
Snpgenie
Snphylo
Snpsift
Snp-sites
Soapdenovo2
SortMeRNA
Souporcell
Sourmash
Spaceranger
SPAdes
Sprod
Squeezemeta
SRA-Toolkit
Srst2
Stacks
STAR
Staramr
STAR-Fusion
STREAM
StringTie
Strique
Structure
Subread
Survivor
Svaba
Svtools
Svtyper
swat
Syri
Talon
Targetp
Tassel
Taxonkit
T-coffee
Tetranscripts
Tiara
Tigmint
Tobias
Tombo
TopHat
TPMCalculator
Transabyss
TransDecoder
Transrate
Transvar
tRAX
Treetime
Trimal
Trim-galore
Trimmomatic
Trinity
Trinotate
Trnascan-se
Trust4
Trycycler
UCSC Executables
Unicycler
Vadr
Vardict-java
Varlociraptor
Varscan
Vartrix
Vatools
Vcf2maf
Vcf2phylip
Vcf-kit
VCFtools
Velocyto.py
Velvet
Vg
Viennarna
Vsearch
Weblogo
Whatshap
Wiggletools
Winnowmap
Wtdbg2
RCAC Biocontainers
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