README.md
setup.py
RouToolPa/__init__.py
RouToolPa.egg-info/PKG-INFO
RouToolPa.egg-info/SOURCES.txt
RouToolPa.egg-info/dependency_links.txt
RouToolPa.egg-info/requires.txt
RouToolPa.egg-info/top_level.txt
RouToolPa/Collections/General.py
RouToolPa/Collections/__init__.py
RouToolPa/Formats/AlignmentFormats.py
RouToolPa/Formats/AnnotationFormats.py
RouToolPa/Formats/VariantFormats.py
RouToolPa/Formats/__init__.py
RouToolPa/Parsers/Abstract.py
RouToolPa/Parsers/BLAST.py
RouToolPa/Parsers/BUSCO.py
RouToolPa/Parsers/Barrnap.py
RouToolPa/Parsers/CAFE.py
RouToolPa/Parsers/CCFOld.py
RouToolPa/Parsers/Coockiecutter.py
RouToolPa/Parsers/Cufflinks.py
RouToolPa/Parsers/DESeq2.py
RouToolPa/Parsers/Dovetail.py
RouToolPa/Parsers/FaCut.py
RouToolPa/Parsers/FastQC.py
RouToolPa/Parsers/GFF.py
RouToolPa/Parsers/GVF.py
RouToolPa/Parsers/General.py
RouToolPa/Parsers/HGMD.py
RouToolPa/Parsers/Haploview.py
RouToolPa/Parsers/KrATER.py
RouToolPa/Parsers/LAST.py
RouToolPa/Parsers/MultipleAlignment.py
RouToolPa/Parsers/PAML.py
RouToolPa/Parsers/PLINK.py
RouToolPa/Parsers/Primer3.py
RouToolPa/Parsers/R.py
RouToolPa/Parsers/SNPeff.py
RouToolPa/Parsers/Sequence.py
RouToolPa/Parsers/TRF.py
RouToolPa/Parsers/Trimmomatic.py
RouToolPa/Parsers/VCF.py
RouToolPa/Parsers/VCFOld.py
RouToolPa/Parsers/__init__.py
RouToolPa/Routines/Alignment.py
RouToolPa/Routines/Annotations.py
RouToolPa/Routines/Drawing.py
RouToolPa/Routines/EggNOG.py
RouToolPa/Routines/Ensembl.py
RouToolPa/Routines/Evolution.py
RouToolPa/Routines/Expression.py
RouToolPa/Routines/Fastq.py
RouToolPa/Routines/File.py
RouToolPa/Routines/GO.py
RouToolPa/Routines/Math.py
RouToolPa/Routines/Matplotlib.py
RouToolPa/Routines/MtDNA.py
RouToolPa/Routines/MultipleAlignment.py
RouToolPa/Routines/NCBI.py
RouToolPa/Routines/Pacbio.py
RouToolPa/Routines/Phylogenetics.py
RouToolPa/Routines/Primer.py
RouToolPa/Routines/Project.py
RouToolPa/Routines/Sequence.py
RouToolPa/Routines/SequenceCluster.py
RouToolPa/Routines/Tree.py
RouToolPa/Routines/TreeFam.py
RouToolPa/Routines/VCF.py
RouToolPa/Routines/__init__.py
RouToolPa/Tools/Abstract.py
RouToolPa/Tools/AssemblyTools.py
RouToolPa/Tools/Picard.py
RouToolPa/Tools/RepeatSearchTools.py
RouToolPa/Tools/TVC.py
RouToolPa/Tools/__init__.py
RouToolPa/Tools/AIndex/AIndex.py
RouToolPa/Tools/AIndex/__init__.py
RouToolPa/Tools/Alignment/BLAT.py
RouToolPa/Tools/Alignment/BWA.py
RouToolPa/Tools/Alignment/Bowtie2.py
RouToolPa/Tools/Alignment/GEM.py
RouToolPa/Tools/Alignment/LongRanger.py
RouToolPa/Tools/Alignment/Novoalign.py
RouToolPa/Tools/Alignment/STAR.py
RouToolPa/Tools/Alignment/TMAP.py
RouToolPa/Tools/Alignment/Tophat.py
RouToolPa/Tools/Alignment/__init__.py
RouToolPa/Tools/Annotation/AUGUSTUS.py
RouToolPa/Tools/Annotation/BUSCO.py
RouToolPa/Tools/Annotation/Barrnap.py
RouToolPa/Tools/Annotation/Emapper.py
RouToolPa/Tools/Annotation/Exonerate.py
RouToolPa/Tools/Annotation/GlimerHMM.py
RouToolPa/Tools/Annotation/SNPeff.py
RouToolPa/Tools/Annotation/TransDecoder.py
RouToolPa/Tools/Annotation/VEP.py
RouToolPa/Tools/Annotation/__init__.py
RouToolPa/Tools/Assemblers/BionanoSolve.py
RouToolPa/Tools/Assemblers/DISCOVAR.py
RouToolPa/Tools/Assemblers/Fermi.py
RouToolPa/Tools/Assemblers/MaSuRCA.py
RouToolPa/Tools/Assemblers/PEAR.py
RouToolPa/Tools/Assemblers/Platanus.py
RouToolPa/Tools/Assemblers/Quast.py
RouToolPa/Tools/Assemblers/Spades.py
RouToolPa/Tools/Assemblers/Supernova.py
RouToolPa/Tools/Assemblers/__init__.py
RouToolPa/Tools/BLAST/BLAST.py
RouToolPa/Tools/BLAST/BLASTPlus.py
RouToolPa/Tools/BLAST/__init__.py
RouToolPa/Tools/Bedtools/BamToFastq.py
RouToolPa/Tools/Bedtools/Flank.py
RouToolPa/Tools/Bedtools/GenomeCov.py
RouToolPa/Tools/Bedtools/GetFasta.py
RouToolPa/Tools/Bedtools/Intersect.py
RouToolPa/Tools/Bedtools/MaskFasta.py
RouToolPa/Tools/Bedtools/__init__.py
RouToolPa/Tools/BioFormats/BioConvert.py
RouToolPa/Tools/BioFormats/__init__.py
RouToolPa/Tools/Clustering/CDHit.py
RouToolPa/Tools/Clustering/__init__.py
RouToolPa/Tools/EMPHF/EMPHF.py
RouToolPa/Tools/EMPHF/__init__.py
RouToolPa/Tools/Evolution/__init__.py
RouToolPa/Tools/Evolution/PAML/Codeml.py
RouToolPa/Tools/Evolution/PAML/MCMCTree.py
RouToolPa/Tools/Evolution/PAML/__init__.py
RouToolPa/Tools/Expression/Cufflinks.py
RouToolPa/Tools/Expression/HTSeq.py
RouToolPa/Tools/Expression/Subread.py
RouToolPa/Tools/Expression/__init__.py
RouToolPa/Tools/Filter/Adapters.py
RouToolPa/Tools/Filter/Clumpify.py
RouToolPa/Tools/Filter/Cookiecutter.py
RouToolPa/Tools/Filter/Cutadapt.py
RouToolPa/Tools/Filter/FaCut.py
RouToolPa/Tools/Filter/FastQC.py
RouToolPa/Tools/Filter/NextClip.py
RouToolPa/Tools/Filter/TrimGalore.py
RouToolPa/Tools/Filter/Trimmomatic.py
RouToolPa/Tools/Filter/__init__.py
RouToolPa/Tools/GATK/Abstract.py
RouToolPa/Tools/GATK/AnalyzeCovariates.py
RouToolPa/Tools/GATK/ApplyRecalibration.py
RouToolPa/Tools/GATK/BaseRecalibrator.py
RouToolPa/Tools/GATK/CatVariants.py
RouToolPa/Tools/GATK/CombineVariants.py
RouToolPa/Tools/GATK/FastaAlternateReferenceMaker.py
RouToolPa/Tools/GATK/GenotypeGVCFs.py
RouToolPa/Tools/GATK/HaplotypeCaller.py
RouToolPa/Tools/GATK/IndelRealigner.py
RouToolPa/Tools/GATK/PrintReads.py
RouToolPa/Tools/GATK/RealignerTargetCreator.py
RouToolPa/Tools/GATK/SelectVariants.py
RouToolPa/Tools/GATK/UnifiedGenotyper.py
RouToolPa/Tools/GATK/ValidateVariants.py
RouToolPa/Tools/GATK/VariantFiltration.py
RouToolPa/Tools/GATK/VariantRecalibrator.py
RouToolPa/Tools/GATK/__init__.py
RouToolPa/Tools/GATK4/Abstract.py
RouToolPa/Tools/GATK4/AnalyzeCovariates4.py
RouToolPa/Tools/GATK4/BaseRecalibrator4.py
RouToolPa/Tools/GATK4/CombineGVCFs4.py
RouToolPa/Tools/GATK4/CombineVariants4.py
RouToolPa/Tools/GATK4/FastaAlternateReferenceMaker4.py
RouToolPa/Tools/GATK4/GenomicsDBImport4.py
RouToolPa/Tools/GATK4/GenotypeGVCFs4.py
RouToolPa/Tools/GATK4/HaplotypeCaller4.py
RouToolPa/Tools/GATK4/SelectVariants4.py
RouToolPa/Tools/GATK4/SortVcf4.py
RouToolPa/Tools/GATK4/UnifiedGenotyper.py
RouToolPa/Tools/GATK4/ValidateVariants4.py
RouToolPa/Tools/GATK4/VariantFiltration4.py
RouToolPa/Tools/GATK4/__init__.py
RouToolPa/Tools/GapClosers/GapFiller.py
RouToolPa/Tools/GapClosers/Sealer.py
RouToolPa/Tools/GapClosers/__init__.py
RouToolPa/Tools/HMMER/HMMER3.py
RouToolPa/Tools/HMMER/__init__.py
RouToolPa/Tools/ImageMagick/Convert.py
RouToolPa/Tools/ImageMagick/__init__.py
RouToolPa/Tools/Kmers/GenomeTester4.py
RouToolPa/Tools/Kmers/Jellyfish.py
RouToolPa/Tools/Kmers/__init__.py
RouToolPa/Tools/LinuxTools/CGAS.py
RouToolPa/Tools/LinuxTools/Download.py
RouToolPa/Tools/LinuxTools/Valgrind.py
RouToolPa/Tools/LinuxTools/__init__.py
RouToolPa/Tools/MultipleAlignment/GUIDANCE2.py
RouToolPa/Tools/MultipleAlignment/MAFFT.py
RouToolPa/Tools/MultipleAlignment/PRANK.py
RouToolPa/Tools/MultipleAlignment/SWAMP.py
RouToolPa/Tools/MultipleAlignment/__init__.py
RouToolPa/Tools/PacBio/SMRTLink4.py
RouToolPa/Tools/PacBio/__init__.py
RouToolPa/Tools/Phylogenetics/ExaBayes.py
RouToolPa/Tools/Phylogenetics/ExaML.py
RouToolPa/Tools/Phylogenetics/Gblocks.py
RouToolPa/Tools/Phylogenetics/MrBayes.py
RouToolPa/Tools/Phylogenetics/PartitionFinder.py
RouToolPa/Tools/Phylogenetics/RAxML.py
RouToolPa/Tools/Phylogenetics/__init__.py
RouToolPa/Tools/Picard/AddOrReplaceReadGroups.py
RouToolPa/Tools/Picard/CreateSequenceDictionary.py
RouToolPa/Tools/Picard/MarkDuplicates.py
RouToolPa/Tools/Picard/SortVcf.py
RouToolPa/Tools/Picard/__init__.py
RouToolPa/Tools/Population/PLINK.py
RouToolPa/Tools/Population/PSMC.py
RouToolPa/Tools/Population/__init__.py
RouToolPa/Tools/Primers/Primer3.py
RouToolPa/Tools/Primers/__init__.py
RouToolPa/Tools/RepeatMasking/RepeatMasker.py
RouToolPa/Tools/RepeatMasking/RepeatModeler.py
RouToolPa/Tools/RepeatMasking/RepeatScout.py
RouToolPa/Tools/RepeatMasking/TRF.py
RouToolPa/Tools/RepeatMasking/__init__.py
RouToolPa/Tools/SRAToolkit/FastqDump.py
RouToolPa/Tools/SRAToolkit/__init__.py
RouToolPa/Tools/Samtools/Samtools.py
RouToolPa/Tools/Samtools/__init__.py
RouToolPa/Tools/Scaffolders/LRNAScaffolder.py
RouToolPa/Tools/Scaffolders/SSPACE.py
RouToolPa/Tools/Scaffolders/__init__.py
RouToolPa/Tools/Stirka/Trimmer.py
RouToolPa/Tools/Stirka/__init__.py
RouToolPa/Tools/WGA/LAST.py
RouToolPa/Tools/WGA/__init__.py