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Integrating a New Tool and Creating a New Application
Deprecated Apps Documentation
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FASTX nucleotide distribution (archived)
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ERMINEJ (archived)
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QTLC_Qstats (archived)
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neighbor (archived)
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PL (archived)
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iPlantPhyloviewer (archived)
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protdist (archived)
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Find SNPs (archived)
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Find Lambda and run PL (archived)
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EMBOSS Diffseq (archived)
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iPlantTASSEL (archived)
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GFFRead Convert GFF to GTF (archived)
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Standard File Format Testing and Conversion Tools (archived)
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Random Jungle 2 (archived)
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VCF to GFF3 documentation (archived)
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Prodigal (archived)
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AdjustPvalue 0.0.1 (archived)
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CloudSTRUCTURE (archived)
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Autodock Vina (archived)
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1000 Bulls GATK Genotyping 1.00 (archived)
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ABySS Short Read Assembler (archived)
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Agbase GOanna 1.02 (archived)
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Agbase GOanna 2.03 (archived)
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AgMIP QuadUI (archived)
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1000 Bulls GATK Genotyping (archived)
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BEDTools annotateBed (archived)
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BEDTools bedToBam (archived)
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BEDTools closestBed (archived)
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BEDTools clusterBed (archived)
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BEDTools complementBed (archived)
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BEDTools flankBed (archived)
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BEDTools getOverlap (archived)
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BEDTools groupBy (archived)
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BEDTools mergeBed (archived)
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BEDTools multiBamCov (archived)
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BEDTools multiIntersectBed (archived)
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BEDTools nucBed (archived)
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BEDTools shuffleBed (archived)
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BEDTools sortBed (archived)
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BEDTools subtractBed (archived)
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BEDTools windowBed (archived)
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Bismark 0.7.4 (archived)
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Bismark Genome Preparation 0.7.4 (archived)
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Bismark Methylation Extractor 0.7.4 (archived)
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Blastp-2.2.26 (archived)
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BLASTX Contig Annotation (Stage 2) (archived)
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Blat_the_most_basic_version (archived)
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BWA 0.5.9 (archived)
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BWA 0.59 (Paired-End Illumina Reads) (archived)
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cd-hit 4.6.1 (archived)
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CD-HIT-EST (archived)
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CD-HIT-EST-2D-ISU-GROUP-D (archived)
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Change Case (archived)
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CONTRAST (archived)
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Convert standard files for AntEpiSeeker (CvtAntEpiSeeker) (archived)
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Convert standard files for Fast-LMM (CvtFastlmm) (archived)
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Convert standard files to Random Jungle format (CvtRandomJungle) (archived)
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Copy of Agbase GOanna 1.02 (archived)
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Copy of Infernal Stage 4 (cmsearch) (archived)
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Create BAM from SAM file (archived)
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CuffCompare (archived)
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Cuffdiff2a (archived)
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cufflinks2gff3 (archived)
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DACE (archived)
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demultiplex samples (archived)
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de novo construction genetic map (archived)
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Detect text file types (archived)
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Disparity through Time (archived)
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DNAML (archived)
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EBI Interproscan (Web Service) (archived)
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EBI Interproscan 1.0.1 (Web Service) (archived)
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eFP Batch Retrieve (archived)
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EMBOSS backtranseq (archived)
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EMBOSS Biosed (archived)
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EMBOSS Charge (archived)
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EMBOSS Checktrans (archived)
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EMBOSS Codcmp (archived)
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EMBOSS Coderet (archived)
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EMBOSS Compseq (archived)
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EMBOSS Cpgreport (archived)
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EMBOSS Cutseq (archived)
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EMBOSS Degapseq (archived)
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EMBOSS Descseq (archived)
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EMBOSS Dreg (archived)
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EMBOSS Einverted (archived)
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EMBOSS Equicktandem (archived)
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EMBOSS Est2genome (archived)
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EMBOSS Etandem (archived)
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EMBOSS Extractfeat (archived)
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EMBOSS Extractseq (archived)
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EMBOSS Fuzznuc (archived)
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EMBOSS Fuzzpro (archived)
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EMBOSS Fuzztran (archived)
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EMBOSS Geecee (archived)
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EMBOSS Getorf (archived)
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EMBOSS iep (archived)
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EMBOSS Maskseq (archived)
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EMBOSS Matcher (archived)
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EMBOSS Megamerger (archived)
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EMBOSS Msbar (archived)
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EMBOSS Needle (archived)
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EMBOSS Newcpgreport (archived)
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EMBOSS Pepstats (archived)
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EMBOSS Notseq (archived)
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EMBOSS Prettyplot (archived)
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EMBOSS Prettyseq (archived)
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EMBOSS Revseq (archived)
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EMBOSS Showfeat (archived)
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EMBOSS Sigcleave (archived)
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EMBOSS siRNA (archived)
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EMBOSS Sixpack (archived)
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EMBOSS Splitter (archived)
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EMBOSS Supermatcher (archived)
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EMBOSS Tcode (archived)
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EMBOSS Textsearch (archived)
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EMBOSS Tranalign (archived)
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EMBOSS Trimest (archived)
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EMBOSS Trimseq (archived)
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EMBOSS Vectorstrip (archived)
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EMBOSS Wordcount (archived)
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EvoFold (archived)
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FastLMM (archived)
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FASTQ quality filter and trim (archived)
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XYPlot 0.0.1 (archived)
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TASSEL 4.3.0 (MLM) (archived)
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Structure2Tassel 0.0.1 (archived)
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NumericalTransform 0.0.1 (archived)
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Filter Genotypes v1 (archived)
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Find orthogroups by sequence similarity 0.1 (archived)
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Find Unique Values (archived)
Forward_Regression-0.0.1 (archived)
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GeneMania Query Runner (archived)
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Generalized linear regression in R (archived)
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GeneMania Query Runner 3.1 (archived)
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GLMstructure (archived)
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GLM Workflow (archived)
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gluH2P (archived)
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Homolog Resolution Service (archived)
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Infernal Stage 1 (cmbuild) (archived)
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Infernal Stage 2 (cmalign) (archived)
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Infernal Stage 3 (cmcalibrate) (archived)
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Infernal Stage 4 (cmsearch) (archived)
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LD_Plot (archived)
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Linear regression in R (archived)
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Lopper (archived)
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Mermasker (archived)
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MrBayes 3.2.1 MPI Basic App (archived)
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Muscle Named Outputs (archived)
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NCBI SRA Toolkit fastq-dump (archived)
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Ornstein-Uhlenbeck models (archived)
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PGDSpider convert data to different population genomics formats (archived)
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Phylogenetics Muscle-PhyML (archived)
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Picante (archived)
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GLM_TASSEL 4.3.1 (archived)
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QTLC workflow (archived)
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QTLC Workflow2 (archived)
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radtag demultiplex samples (archived)
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Random Jungle 2.0.0 (archived)
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Rename a file (archived)
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RAxML - Nucleotides (archived)
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RAxML - Proteins (archived)
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RNAfold (archived)
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samtools_Sam_noheader_2Bam (archived)
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SAMTOOLS-0.1.19 SAM-to-BAM-sans-header (archived)
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SAMTOOLS-0.1.19 SORT BAM (archived)
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SCARF (archived)
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Select Markers to Keep v1 (archived)
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Qxpak (archived)
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SOAP 2.21 (archived)
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SOAP2 Aligner for Paired-End Illumina Reads (archived)
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SOAP2 Aligner for Single-End Illumina Reads (archived)
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Soapdenovo-1.05 (archived)
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SOAPdenovo-2 (archived)
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SPA-1.0.0-Dev (archived)
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structure software (archived)
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Structure v. 2.3.3 (archived)
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Subset Reference Tree (archived)
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Tallymer-mkindex (archived)
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Tallymer-occratio (archived)
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Tallymer-search (archived)
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Tophat-SE (archived)
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FastQC 0.10.1
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tophat-2.1.1, tophat-2.1.0, and TopHat2-PE (archived)
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TopHat Aligner for Single-End Illumina Reads (Custom Genome) (archived)
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TopHat Aligner for Single-End Illumina Reads (archived)
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TopHat Aligner for Paired-End Illumina Reads (archived)
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TopHat Aligner for Paired-End Illumina Reads (Custom Genome) (archived)
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TopHat2-SE (archived)
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Tophat-SE-PE (archived)
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Scythe-adapter-trimming (archived)
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MetaGeneMark 2.26.0 (archived)
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fits_extraction-1.0
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Bowtie2-build 2.2.4 Indexer
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raxml-starttree-8.2.11
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HAMRLINC v1.0
Discovery Environment Applications List
Deprecated Apps Documentation
Structure v. 2.3.3 (archived)
Summarize
Structure v. 2.3.3 (archived)
de-confluence
kkennedy
NicoleH
cnoutsos (Unlicensed)
Owned by
de-confluence
Last updated:
Aug 23, 2016
by
kkennedy
1 min read
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