freebsd-ports/biology/Makefile

    COMMENT = Biology

    SUBDIR += R-cran-Biobase
    SUBDIR += R-cran-BiocGenerics
    SUBDIR += R-cran-BiocManager
    SUBDIR += abyss
    SUBDIR += ad2vcf
    SUBDIR += artemis
    SUBDIR += atac-seq
    SUBDIR += augustus
    SUBDIR += avida
    SUBDIR += babel
    SUBDIR += bamtools
    SUBDIR += bamutil
    SUBDIR += barrnap
    SUBDIR += bbmap
    SUBDIR += bcf-score
    SUBDIR += bcftools
    SUBDIR += bedtools
    SUBDIR += bfc
    SUBDIR += bifrost
    SUBDIR += bio-mocha
    SUBDIR += bioawk
    SUBDIR += biococoa
    SUBDIR += biolibc
    SUBDIR += biolibc-tools
    SUBDIR += bioparser
    SUBDIR += biosig
    SUBDIR += biosoup
    SUBDIR += biostar-tools
    SUBDIR += bolt-lmm
    SUBDIR += bowtie
    SUBDIR += bowtie2
    SUBDIR += btllib
    SUBDIR += bwa
    SUBDIR += canu
    SUBDIR += cd-hit
    SUBDIR += cdbfasta
    SUBDIR += checkm
    SUBDIR += chip-seq
    SUBDIR += clustal-omega
    SUBDIR += clustalw
    SUBDIR += cufflinks
    SUBDIR += cytoscape
    SUBDIR += ddocent
    SUBDIR += diamond
    SUBDIR += dsr-pdb
    SUBDIR += edlib
    SUBDIR += emboss
    SUBDIR += erminej
    SUBDIR += exonerate
    SUBDIR += fasda
    SUBDIR += fasta
    SUBDIR += fasta3
    SUBDIR += fastahack
    SUBDIR += fastdnaml
    SUBDIR += fastool
    SUBDIR += fastp
    SUBDIR += fastq-trim
    SUBDIR += fastqc
    SUBDIR += fasttree
    SUBDIR += fastx-toolkit
    SUBDIR += figtree
    SUBDIR += flash
    SUBDIR += fluctuate
    SUBDIR += freebayes
    SUBDIR += garlic
    SUBDIR += gatk
    SUBDIR += gcta
    SUBDIR += gemma
    SUBDIR += generand
    SUBDIR += gff2ps
    SUBDIR += gffread
    SUBDIR += gmap
    SUBDIR += gperiodic
    SUBDIR += graphlan
    SUBDIR += groopm
    SUBDIR += haplohseq
    SUBDIR += hhsuite
    SUBDIR += hisat2
    SUBDIR += hmmer
    SUBDIR += htslib
    SUBDIR += hyphy
    SUBDIR += igv
    SUBDIR += infernal
    SUBDIR += iolib
    SUBDIR += iqtree
    SUBDIR += jalview
    SUBDIR += jellyfish
    SUBDIR += kallisto
    SUBDIR += kmcp
    SUBDIR += lamarc
    SUBDIR += libbigwig
    SUBDIR += libcombine
    SUBDIR += libgff
    SUBDIR += libgtextutils
    SUBDIR += libneurosim
    SUBDIR += libnuml
    SUBDIR += libsbml
    SUBDIR += libsedml
    SUBDIR += linux-foldingathome
    SUBDIR += locarna
    SUBDIR += mafft
    SUBDIR += mapm3
    SUBDIR += mashmap
    SUBDIR += megahit
    SUBDIR += metaeuk
    SUBDIR += migrate
    SUBDIR += minimap2
    SUBDIR += mmseqs2
    SUBDIR += molden
    SUBDIR += mothur
    SUBDIR += mrbayes
    SUBDIR += mummer
    SUBDIR += muscle
    SUBDIR += ncbi-blast+
    SUBDIR += ncbi-cxx-toolkit
    SUBDIR += ncbi-entrez-direct
    SUBDIR += ncbi-toolkit
    SUBDIR += ncbi-vdb
    SUBDIR += ngs-sdk
    SUBDIR += p5-AcePerl
    SUBDIR += p5-Bio-ASN1-EntrezGene
    SUBDIR += p5-Bio-Cluster
    SUBDIR += p5-Bio-Coordinate
    SUBDIR += p5-Bio-DB-EMBL
    SUBDIR += p5-Bio-DB-NCBIHelper
    SUBDIR += p5-Bio-Das
    SUBDIR += p5-Bio-Das-Lite
    SUBDIR += p5-Bio-FeatureIO
    SUBDIR += p5-Bio-GFF3
    SUBDIR += p5-Bio-Glite
    SUBDIR += p5-Bio-Graphics
    SUBDIR += p5-Bio-MAGETAB
    SUBDIR += p5-Bio-NEXUS
    SUBDIR += p5-Bio-Phylo
    SUBDIR += p5-Bio-SCF
    SUBDIR += p5-Bio-Variation
    SUBDIR += p5-BioPerl
    SUBDIR += p5-BioPerl-Run
    SUBDIR += p5-TrimGalore
    SUBDIR += p5-transdecoder
    SUBDIR += paml
    SUBDIR += pbbam
    SUBDIR += peak-classifier
    SUBDIR += pear-merger
    SUBDIR += phrap
    SUBDIR += phred
    SUBDIR += phyml
    SUBDIR += picard-tools
    SUBDIR += plink
    SUBDIR += pooler
    SUBDIR += primer3
    SUBDIR += prodigal
    SUBDIR += prodigy-lig
    SUBDIR += protomol
    SUBDIR += psi88
    SUBDIR += py-Genesis-PyAPI
    SUBDIR += py-PySCeS
    SUBDIR += py-bcbio-gff
    SUBDIR += py-biom-format
    SUBDIR += py-biopython
    SUBDIR += py-biosig
    SUBDIR += py-bx-python
    SUBDIR += py-crossmap
    SUBDIR += py-cutadapt
    SUBDIR += py-deeptools
    SUBDIR += py-deeptoolsintervals
    SUBDIR += py-dna-features-viewer
    SUBDIR += py-dnaio
    SUBDIR += py-ete3
    SUBDIR += py-gffutils
    SUBDIR += py-goatools
    SUBDIR += py-gtfparse
    SUBDIR += py-hits
    SUBDIR += py-htseq
    SUBDIR += py-libnuml
    SUBDIR += py-libsedml
    SUBDIR += py-loompy
    SUBDIR += py-macs2
    SUBDIR += py-macs3
    SUBDIR += py-mrcfile
    SUBDIR += py-multiqc
    SUBDIR += py-newick
    SUBDIR += py-ont-fast5-api
    SUBDIR += py-orange3-bioinformatics
    SUBDIR += py-orange3-single-cell
    SUBDIR += py-pandas-charm
    SUBDIR += py-py2bit
    SUBDIR += py-pybigwig
    SUBDIR += py-pyfaidx
    SUBDIR += py-pyrodigal
    SUBDIR += py-pysam
    SUBDIR += py-python-libsbml
    SUBDIR += py-pywgsim
    SUBDIR += py-resdk
    SUBDIR += py-scikit-bio
    SUBDIR += py-valerius
    SUBDIR += py-xenaPython
    SUBDIR += pyfasta
    SUBDIR += python-nexus
    SUBDIR += rainbow
    SUBDIR += rampler
    SUBDIR += readseq
    SUBDIR += rna-seq
    SUBDIR += ruby-bio
    SUBDIR += rubygem-bio
    SUBDIR += rubygem-bio-executables
    SUBDIR += rubygem-bio-old-biofetch-emulator
    SUBDIR += rubygem-bio-shell
    SUBDIR += salmon
    SUBDIR += sam2pairwise
    SUBDIR += samtools
    SUBDIR += scrm
    SUBDIR += seaview
    SUBDIR += seqan
    SUBDIR += seqan-apps
    SUBDIR += seqan1
    SUBDIR += seqan3
    SUBDIR += seqkit
    SUBDIR += seqtk
    SUBDIR += seqwish
    SUBDIR += sigviewer
    SUBDIR += slclust
    SUBDIR += smithwaterman
    SUBDIR += snpeff
    SUBDIR += spoa
    SUBDIR += sra-tools
    SUBDIR += stacks
    SUBDIR += star
    SUBDIR += stringtie
    SUBDIR += subread
    SUBDIR += tRNAscan-SE
    SUBDIR += tabixpp
    SUBDIR += taxonkit
    SUBDIR += treekin
    SUBDIR += treepuzzle
    SUBDIR += trimadap
    SUBDIR += trimmomatic
    SUBDIR += ucsc-userapps
    SUBDIR += ugene
    SUBDIR += unikmer
    SUBDIR += vcf-split
    SUBDIR += vcf2hap
    SUBDIR += vcflib
    SUBDIR += vcftools
    SUBDIR += velvet
    SUBDIR += viennarna
    SUBDIR += vsearch
    SUBDIR += vt
    SUBDIR += wfa2-lib
    SUBDIR += wise

.include <bsd.port.subdir.mk>