| archivers/libaec | NetBSD | 1.1.3 | archivers/libaec 1.1.3: Adaptive entropy coding library. NetBSD port maintained by [email protected]. |
| archivers/py-lzstring | NetBSD | 1.0.4 | archivers/py-lzstring 1.0.4: LZ-based in-memory string compression. NetBSD port maintained by [email protected]. |
| biology/ad2vcf | NetBSD | 0.1.6.20 | biology/ad2vcf 0.1.6.20: Add allelic depth info from a SAM stream to a VCF file. NetBSD port maintained by [email protected]. |
| biology/atac-seq | NetBSD | 1.5.0 | biology/atac-seq 1.5.0: Core tools needed for ATAC-Seq analysis. NetBSD port maintained by [email protected]. |
| biology/bcf-score | NetBSD | 1.20nb1 | biology/bcf-score 1.20nb1: Bcftools plugin for mosaic chromosomal alteration analysis. NetBSD port maintained by [email protected]. |
| biology/bcftools | NetBSD | 1.21 | biology/bcftools 1.21: Tools for manipulating BCF and VCF variant call files. NetBSD port maintained by [email protected]. |
| biology/bedtools | NetBSD | 2.31.1 | biology/bedtools 2.31.1: Swiss army knife for genome arithmetic. NetBSD port maintained by [email protected]. |
| biology/bio-mocha | NetBSD | 1.20 | biology/bio-mocha 1.20: Bcftools plugin for mosaic chromosomal alteration analysis. NetBSD port maintained by [email protected]. |
| biology/biolibc | NetBSD | 0.2.6.4 | biology/biolibc 0.2.6.4: Low-level high-performance bioinformatics library. NetBSD port maintained by [email protected]. |
| biology/biolibc-tools | NetBSD | 0.1.4.13 | biology/biolibc-tools 0.1.4.13: High-performance bioinformatics tools based on biolibc. NetBSD port maintained by [email protected]. |
| biology/bowtie2 | NetBSD | 2.5.4 | biology/bowtie2 2.5.4: Ultrafast, memory-efficient short read aligner. NetBSD port maintained by [email protected]. |
| biology/bwa | NetBSD | 0.7.17nb7 | biology/bwa 0.7.17nb7: Map low-divergent sequences against a large reference genome. NetBSD port maintained by [email protected]. |
| biology/canu | NetBSD | 2.2nb11 | biology/canu 2.2nb11: Single molecule sequence assembler for genomes large and small. NetBSD port maintained by [email protected]. |
| biology/cdhit | NetBSD | 4.8.1nb1 | biology/cdhit 4.8.1nb1: Clustering and comparing protein or nucleotide sequences. NetBSD port maintained by [email protected]. |
| biology/chip-seq | NetBSD | 1.2 | biology/chip-seq 1.2: Core tools needed for ChIP-Seq analysis. NetBSD port maintained by [email protected]. |
| biology/fasda | NetBSD | 0.1.5.8 | biology/fasda 0.1.5.8: Fast and simple differential analysis. NetBSD port maintained by [email protected]. |
| biology/fastp | NetBSD | 0.22.0 | biology/fastp 0.22.0: Ultra-fast all-in-one FASTQ preprocessor. NetBSD port maintained by [email protected]. |
| biology/fastq-trim | NetBSD | 0.1.3 | biology/fastq-trim 0.1.3: Lightening fast sequence read trimmer. NetBSD port maintained by [email protected]. |
| biology/fastqc | NetBSD | 0.11.9nb2 | biology/fastqc 0.11.9nb2: Quality control tool for high throughput sequence data. NetBSD port maintained by [email protected]. |
| biology/fasttree | NetBSD | 2.1.11 | biology/fasttree 2.1.11: Approximately-maximum-likelihood phylogenetic trees from alignments. NetBSD port maintained by [email protected]. |
| biology/fastx-toolkit | NetBSD | 0.0.14.6nb1 | biology/fastx-toolkit 0.0.14.6nb1: CLI tools for Short-Reads FASTA/FASTQ files preprocessing. NetBSD port maintained by [email protected]. |
| biology/generand | NetBSD | 0.1.2.9 | biology/generand 0.1.2.9: Generate random genomic data in FASTA/FASTQ, SAM, or VCF format. NetBSD port maintained by [email protected]. |
| biology/gffread | NetBSD | 0.12.7 | biology/gffread 0.12.7: GFF/GTF format conversions, filtering, FASTA extraction, etc. NetBSD port maintained by [email protected]. |
| biology/hisat2 | NetBSD | 2.2.1nb4 | biology/hisat2 2.2.1nb4: Alignment program for mapping next-generation sequencing reads. NetBSD port maintained by [email protected]. |
| biology/htslib | NetBSD | 1.21nb9 | biology/htslib 1.21nb9: C library for high-throughput sequencing data formats. NetBSD port maintained by [email protected]. |
| biology/igv | NetBSD | 2.9.2 | biology/igv 2.9.2: Visualization tool for genomic datasets. NetBSD port maintained by [email protected]. |
| biology/kallisto | NetBSD | 0.51.1 | biology/kallisto 0.51.1: Quantify abundances of transcripts from RNA-Seq data. NetBSD port maintained by [email protected]. |
| biology/microsynteny-tools | NetBSD | 0.1.0.175 | biology/microsynteny-tools 0.1.0.175: Tools for exploring microsyntenic differences among species. NetBSD port maintained by [email protected]. |
| biology/ncbi-blast+ | NetBSD | 2.16.0nb4 | biology/ncbi-blast+ 2.16.0nb4: NCBI implementation of Basic Local Alignment Search Tool. NetBSD port maintained by [email protected]. |
| biology/peak-classifier | NetBSD | 0.1.4.21 | biology/peak-classifier 0.1.4.21: Classify ChIP/ATAC-Seq peaks based on features provided in a GFF. NetBSD port maintained by [email protected]. |
| biology/plink | NetBSD | 1.07nb1 | biology/plink 1.07nb1: Whole-genome association analysis toolset. NetBSD port maintained by [email protected]. |
| biology/plinkseq | NetBSD | 0.08nb19 | biology/plinkseq 0.08nb19: C/C++ library for working with human genetic variation data. NetBSD port maintained by [email protected]. |
| biology/py-bcbio-gff | NetBSD | 0.7.1 | biology/py-bcbio-gff 0.7.1: Read and write Generic Feature Format (GFF) with Biopython integration. NetBSD port maintained by [email protected]. |
| biology/py-dna-features-viewer | NetBSD | 3.1.5 | biology/py-dna-features-viewer 3.1.5: Python library to visualize DNA features, e.g. GenBank or Gff files. NetBSD port maintained by [email protected]. |
| biology/py-macs2 | NetBSD | 2.2.9.1nb3 | biology/py-macs2 2.2.9.1nb3: Algorithm for identifying transcription factor binding sites. NetBSD port maintained by [email protected]. |
| biology/py-macs3 | NetBSD | 3.0.2nb2 | biology/py-macs3 3.0.2nb2: Peak caller aimed at transcription factor binding sites. NetBSD port maintained by [email protected]. |
| biology/py-multiqc | NetBSD | 1.25.2nb1 | biology/py-multiqc 1.25.2nb1: Aggregate bioinformatics analysis reports across samples and tools. NetBSD port maintained by [email protected]. |
| biology/rna-seq | NetBSD | 1.3.0 | biology/rna-seq 1.3.0: Core tools needed for RNA-Seq analysis. NetBSD port maintained by [email protected]. |
| biology/rna-star | NetBSD | 2.7.10b | biology/rna-star 2.7.10b: Spliced Transcripts Alignment to a Reference. NetBSD port maintained by [email protected]. |
| biology/samtools | NetBSD | 1.21 | biology/samtools 1.21: Tools for manipulating sequence alignment maps. NetBSD port maintained by [email protected]. |
| biology/seqtk | NetBSD | 1.4 | biology/seqtk 1.4: Tool for processing sequences in FASTA/FASTQ format. NetBSD port maintained by [email protected]. |
| biology/sra-tools | NetBSD | 3.2.0nb2 | biology/sra-tools 3.2.0nb2: NCBI's toolkit for handling data in INSDC Sequence Read Archives. NetBSD port maintained by [email protected]. |
| biology/stacks | NetBSD | 2.68 | biology/stacks 2.68: Software pipeline for building loci from short-read sequences. NetBSD port maintained by [email protected]. |
| biology/stringtie | NetBSD | 2.1.1 | biology/stringtie 2.1.1: Transcript assembly and quantification for RNA-seq. NetBSD port maintained by [email protected]. |
| biology/trimmomatic | NetBSD | 0.38 | biology/trimmomatic 0.38: Flexible read trimming tool for Illumina NGS data. NetBSD port maintained by [email protected]. |
| biology/vcf-split | NetBSD | 0.1.5.19 | biology/vcf-split 0.1.5.19: Split a multi-sample VCF into single-sample VCFs. NetBSD port maintained by [email protected]. |
| biology/vcf2hap | NetBSD | 0.1.6.14 | biology/vcf2hap 0.1.6.14: Generate .hap file from VCF for haplohseq. NetBSD port maintained by [email protected]. |
| biology/vsearch | NetBSD | 2.29.4 | biology/vsearch 2.29.4: Versatile open-source tool for metagenomics. NetBSD port maintained by [email protected]. |
| devel/libgtextutils | NetBSD | 0.7.2 | devel/libgtextutils 0.7.2: Gordon text utilities. NetBSD port maintained by [email protected]. |
| devel/libxtend | NetBSD | 0.2.0.2 | devel/libxtend 0.2.0.2: Miscellaneous functions to extend libc. NetBSD port maintained by [email protected]. |
| devel/py-capturer | NetBSD | 3.0 | devel/py-capturer 3.0: Easily capture stdout/stderr of the current process and subprocesses. NetBSD port maintained by [email protected]. |
| devel/py-coloredlogs | NetBSD | 15.0.1 | devel/py-coloredlogs 15.0.1: Colored terminal output for Python's logging module. NetBSD port maintained by [email protected]. |
| devel/py-cykhash | NetBSD | 2.0.1nb2 | devel/py-cykhash 2.0.1nb2: Cython equivalent to khash-sets/maps. NetBSD port maintained by [email protected]. |
| devel/py-orca | NetBSD | 1.8nb1 | devel/py-orca 1.8nb1: Python library for task orchestration. NetBSD port maintained by [email protected]. |
| devel/py-rich-click | NetBSD | 1.9.9 | devel/py-rich-click 1.9.9: Format click help output nicely with rich. NetBSD port maintained by [email protected]. |
| devel/py-verboselogs | NetBSD | 1.7nb1 | devel/py-verboselogs 1.7nb1: Extend Python logging module to add the log levels. NetBSD port maintained by [email protected]. |
| devel/simde | NetBSD | 0.8.2 | devel/simde 0.8.2: Header-only library for SIMD intrinsics. NetBSD port maintained by [email protected]. |
| graphics/py-spectra | NetBSD | 0.0.11 | graphics/py-spectra 0.0.11: Color scales and color conversion made easy for Python. NetBSD port maintained by [email protected]. |
| math/armadillo | NetBSD | 12.6.7 | math/armadillo 12.6.7: C++ linear algebra library. NetBSD port maintained by [email protected]. |
| math/basic-stats | NetBSD | 0.1.2.8 | math/basic-stats 0.1.2.8: Command-line tool to perform basic statistics on tabular data. NetBSD port maintained by [email protected]. |
| math/py-colormath | NetBSD | 3.0.0 | math/py-colormath 3.0.0: Module that spares the user from directly dealing with color math. NetBSD port maintained by [email protected]. |
| security/munge | NetBSD | 0.5.16 | security/munge 0.5.16: Authentication service for creating and validating credentials. NetBSD port maintained by [email protected]. |
| sysutils/auto-admin | NetBSD | 0.8.1 | sysutils/auto-admin 0.8.1: Portable tools for automating systems management. NetBSD port maintained by [email protected]. |
| sysutils/desktop-installer | NetBSD | 1.1.0 | sysutils/desktop-installer 1.1.0: Quickly configure a NetBSD desktop system. NetBSD port maintained by [email protected]. |
| sysutils/devpub-mount | NetBSD | 0.1.0.5 | sysutils/devpub-mount 0.1.0.5: NetBSD devpubd-based automounter. NetBSD port maintained by [email protected]. |
| sysutils/npmount | NetBSD | 0.1.1.3 | sysutils/npmount 0.1.1.3: Command line tool for non-privileged [un]mount. NetBSD port maintained by [email protected]. |
| sysutils/qmediamanager | NetBSD | 0.1.1.2nb15 | sysutils/qmediamanager 0.1.1.2nb15: GUI tool for managing removable media. NetBSD port maintained by [email protected]. |
| sysutils/runas | NetBSD | 0.2.0 | sysutils/runas 0.2.0: Wrapper around su for running a command as another user. NetBSD port maintained by [email protected]. |
| textproc/py-humanfriendly | NetBSD | 10.0nb2 | textproc/py-humanfriendly 10.0nb2: Human friendly output for text interfaces using Python. NetBSD port maintained by [email protected]. |
| wip/ad2vcf | NetBSD | 0.1.6.20 | wip/ad2vcf 0.1.6.20: Add allelic depth info from a SAM stream to a VCF file. NetBSD port maintained by [email protected]. |
| wip/ape | NetBSD | 3.5.3.187 | wip/ape 3.5.3.187: Another Programmer's Editor. NetBSD port maintained by [email protected]. |
| wip/atac-seq | NetBSD | 1.5.0 | wip/atac-seq 1.5.0: Core tools needed for ATAC-Seq analysis. NetBSD port maintained by [email protected]. |
| wip/auto-admin | NetBSD | 0.8.3.32 | wip/auto-admin 0.8.3.32: Portable tools for automating systems management. NetBSD port maintained by [email protected]. |
| wip/auto-dev | NetBSD | 0.0.0.34 | wip/auto-dev 0.0.0.34: Tools for automating code development and documentation. NetBSD port maintained by [email protected]. |
| wip/bamtools | NetBSD | 2.5.3 | wip/bamtools 2.5.3: API and toolkit for handling BAM files. NetBSD port maintained by [email protected]. |
| wip/basic-stats | NetBSD | 0.1.2.8 | wip/basic-stats 0.1.2.8: Command-line tool to perform basic statistics on tabular data. NetBSD port maintained by [email protected]. |
| wip/bcf-score | NetBSD | 1.20 | wip/bcf-score 1.20: Bcftools plugin for mosaic chromosomal alteration analysis. NetBSD port maintained by [email protected]. |
| wip/bcftools | NetBSD | 1.22 | wip/bcftools 1.22: Tools for manipulating BCF and VCF variant call files. NetBSD port maintained by [email protected]. |
| wip/bedtools | NetBSD | 2.31.1 | wip/bedtools 2.31.1: Swiss army knife for genome arithmetic. NetBSD port maintained by [email protected]. |
| wip/bifrost | NetBSD | 1.3.5nb1 | wip/bifrost 1.3.5nb1: Parallel construction, indexing and querying of de Bruijn graphs. NetBSD port maintained by [email protected]. |
| wip/bio-mocha | NetBSD | 1.20 | wip/bio-mocha 1.20: Bcftools plugin for mosaic chromosomal alteration analysis. NetBSD port maintained by [email protected]. |
| wip/biolibc | NetBSD | 0.2.7 | wip/biolibc 0.2.7: Low-level high-performance bioinformatics library. NetBSD port maintained by [email protected]. |
| wip/biolibc-tools | NetBSD | 0.1.5 | wip/biolibc-tools 0.1.5: High-performance bioinformatics tools based on biolibc. NetBSD port maintained by [email protected]. |
| wip/biostar-tools | NetBSD | 1.10.1 | wip/biostar-tools 1.10.1: Meta-package for Biostar Handbook tools. NetBSD port maintained by [email protected]. |
| wip/bolt-lmm | NetBSD | 2.3.2nb1 | wip/bolt-lmm 2.3.2nb1: Statistics for testing association between phenotype and genotypes. NetBSD port maintained by [email protected]. |
| wip/bowtie2 | NetBSD | 2.5.4 | wip/bowtie2 2.5.4: Ultrafast, memory-efficient short read aligner. NetBSD port maintained by [email protected]. |
| wip/bpcscripts | NetBSD | 2016.02.09 | wip/bpcscripts 2016.02.09: Gast Illumina processing. NetBSD port maintained by [email protected]. |
| wip/brain-mesh-builder | NetBSD | 1.1 | wip/brain-mesh-builder 1.1: Surface mesh building based on 3-dimensional image stacks. NetBSD port maintained by [email protected]. |
| wip/bwa | NetBSD | 0.7.17nb7 | wip/bwa 0.7.17nb7: Map low-divergent sequences against a large reference genome. NetBSD port maintained by [email protected]. |
| wip/canu | NetBSD | 2.2 | wip/canu 2.2: Single molecule sequence assembler for genomes large and small. NetBSD port maintained by [email protected]. |
| wip/centrifuge | NetBSD | 1.0.4 | wip/centrifuge 1.0.4: Novel microbial classification engine. NetBSD port maintained by [email protected]. |
| wip/chip-seq | NetBSD | 1.2 | wip/chip-seq 1.2: Core tools needed for ChIP-Seq analysis. NetBSD port maintained by [email protected]. |
| wip/cufflinks-2.2.1 | NetBSD | 2.2.1 | wip/cufflinks-2.2.1 2.2.1: RNA transcript assembly, differential expression/regulation. NetBSD port maintained by [email protected]. |
| wip/cut-and-run | NetBSD | 0.0.1 | wip/cut-and-run 0.0.1: Split a text file into segments and process in parallel. NetBSD port maintained by [email protected]. |
| wip/desktop-installer | NetBSD | 1.1.1 | wip/desktop-installer 1.1.1: Quickly configure a NetBSD desktop system. NetBSD port maintained by [email protected]. |
| wip/detab | NetBSD | 0.1.0 | wip/detab 0.1.0: Replace tabs with spaces in a text file. NetBSD port maintained by [email protected]. |
| wip/devpub-mount | NetBSD | 0.1.0.5 | wip/devpub-mount 0.1.0.5: NetBSD devpubd-based automounter. NetBSD port maintained by [email protected]. |
| wip/docviewer | NetBSD | 0.2.0.2 | wip/docviewer 0.2.0.2: Generic command to automatically select a document viewer. NetBSD port maintained by [email protected]. |
| wip/epacts | NetBSD | 2017.08.15 | wip/epacts 2017.08.15: Efficient and Parallelizable Association Container Toolbox. NetBSD port maintained by [email protected]. |
| wip/famsa | NetBSD | 1.2.4 | wip/famsa 1.2.4: Algorithm for large-scale multiple sequence alignments. NetBSD port maintained by [email protected]. |
BSD Ports