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| |Multiple alignment program for amino acid or nucleotide sequences | | |Multiple alignment program for amino acid or nucleotide sequences |
| |[[File:Icon FreeBSD.png|100px|link=https://svnweb.freebsd.org/ports/head/biology/mafft/pkg-descr?revision=HEAD]] [[File:1329059652.png|35px|link=http://mafft.cbrc.jp/alignment/software/]] | | |[[File:Icon FreeBSD.png|100px|link=https://svnweb.freebsd.org/ports/head/biology/mafft/pkg-descr?revision=HEAD]] [[File:1329059652.png|35px|link=http://mafft.cbrc.jp/alignment/software/]] |
| + | |- |
| + | |massxpert |
| + | |massXpert software for (bio)chemists |
| + | |[[File:Icon FreeBSD.png|100px|link=https://svnweb.freebsd.org/ports/head/science/massxpert/pkg-descr?revision=HEAD]] [[File:1329059652.png|35px|link=https://salsa.debian.org/debichem-team/massxpert]] |
| |- | | |- |
| |minc2 | | |minc2 |
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| |Display molecular orbitals and electron densities in 2D and 3D | | |Display molecular orbitals and electron densities in 2D and 3D |
| |[[File:Icon FreeBSD.png|100px|link=https://svnweb.freebsd.org/ports/head/biology/molden/pkg-descr?revision=HEAD]] [[File:1329059652.png|35px|link=http://www.cmbi.ru.nl/molden/]] | | |[[File:Icon FreeBSD.png|100px|link=https://svnweb.freebsd.org/ports/head/biology/molden/pkg-descr?revision=HEAD]] [[File:1329059652.png|35px|link=http://www.cmbi.ru.nl/molden/]] |
| + | |- |
| + | |mmtf-cpp |
| + | |C++ MMTF format API, decoder and encoder, for molecular structures |
| + | |[[File:Icon FreeBSD.png|100px|link=https://svnweb.freebsd.org/ports/head/science/mmtf-cpp/pkg-descr?revision=HEAD]] [[File:1329059652.png|35px|link=https://mmtf.rcsb.org/]] |
| |- | | |- |
| |ncbi-blast | | |ncbi-blast |
App/Package
|
Abstract
|
Addition or Link
|
CheckM
|
Quality assessment tool for the microbial genomes
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|
GroopM
|
Metagenomic binning suite
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InsightToolkit
|
Insight Toolkit
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|
Jellyfish
|
Fast, memory-efficient counting of k-mers in DNA
|
|
abyss
|
Assembly By Short Sequences: parallel, paired-end sequence assembler
|
|
afni
|
Advanced Functional Neuro Imaging
|
|
artemis
|
DNA sequence viewer and annotation tool
|
|
avida
|
Auto-adaptive genetic system designed for ALife research
|
|
babel
|
Converts among various molecular file formats
|
|
bamtools
|
API and toolkit for handling BAM files
|
|
biococoa
|
Bioinformatics framework
|
|
canu
|
Single molecule sequence assembler
|
|
cycle
|
Calendar program for women
|
|
cytoscape
|
Software to visualize molecular interaction networks, gene expression
|
|
dDocent
|
Bash pipeline for RAD sequencing
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|
emboss
|
Collection of open source tools for genetic sequence analysis
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|
figtree
|
Graphical viewer of phylogenetic trees
|
|
garlic
|
Molecular viewer, editor, and visualization program
|
|
gperiodic
|
Displays a periodic table of the elements
|
|
haplohseq
|
Identify regions of allelic imbalance
|
|
hhsuite
|
Remote protein homology detection suite
|
|
igv
|
Visualization tool for genomic datasets
|
|
jalview
|
Viewer and editor for multiple sequence alignments
|
|
kallisto
|
Quantify abundances of transcripts from RNA-Seq data
|
|
libghemical
|
Support libraries of science/ghemical port
|
|
mafft
|
Multiple alignment program for amino acid or nucleotide sequences
|
|
massxpert
|
massXpert software for (bio)chemists
|
|
minc2
|
Medical Imaging NetCDF
|
|
molden
|
Display molecular orbitals and electron densities in 2D and 3D
|
|
mmtf-cpp
|
C++ MMTF format API, decoder and encoder, for molecular structures
|
|
ncbi-blast
|
NCBI implementation of Basic Local Alignment Search Tool
|
|
ncbi-cxx-toolkit-
|
NCBI C++ Toolkit
|
|
p5-Bio-ASN1-EntrezGene
|
Regular expression-based Perl Parser for NCBI Entrez Gene
|
|
p5-Bio-Cluster
|
BioPerl cluster modules
|
|
p5-Bio-Coordinate
|
Modules for working with biological coordinates
|
|
p5-Bio-DB-EMBL
|
Database object interface for EMBL entry retrieval
|
|
p5-Bio-DB-NCBIHelper
|
Collection of routines useful for queries to NCBI databases
|
|
p5-Bio-Das
|
Client-side library for Distributed Genome Annotation System
|
|
p5-Bio-Das-Lite
|
Perl extension for the DAS (HTTP+XML) Protocol
|
|
p5-Bio-FeatureIO
|
Handler for FeatureIO
|
|
p5-Bio-GFF3
|
Fast low-level functions for parsing and formatting GFF3
|
|
p5-Bio-Glite
|
Perl Interface to G-language
|
|
p5-Bio-Graphics
|
Generate GD Images of Bio::Seq Objects
|
|
p5-Bio-MAGETAB
|
Data model and utility API for the MAGE-TAB format
|
|
p5-Bio-NEXUS
|
Object-oriented Perl API for the NEXUS file format
|
|
p5-Bio-Phylo
|
Phylogenetic analysis using Perl
|
|
p5-Bio-SCF
|
Read and Update SCF Chromatographic Sequence Files
|
|
p5-Bio-Variation
|
BioPerl variation-related functionality
|
|
p5-BioPerl
|
Collection of Perl modules for bioinformatics
|
|
p5-BioPerl-Run
|
Wrapper modules for common bioinformatics tools
|
|
p5-TrimGalore
|
Wrapper around Cutadapt and FastQC for adapter and quality trimming
|
|
pbcopper
|
Core C++ library for Pacific Biosciences tools
|
|
prodigal
|
Protein-coding gene prediction for prokaryotic genomes
|
|
py27-multiqc
|
Aggregate bioinformatics analysis reports across samples and tools
|
|
py27-pymol
|
OpenGL-based molecular visualization system
|
|
py37-chainer-chemistry
|
Library for deep learning in biology and chemistry
|
|
py37-multiqc
|
Aggregate bioinformatics analysis reports across samples and tools
|
|
py37-orange3-bioinformatics
|
Orange add-on providing common functionality for bioinformatics
|
|
py37-orange3-single-cell
|
Orange add-on for gene expression of single cell data
|
|
pycogent
|
Toolkit for statistical analysis of biological sequences
|
|
raster3d
|
Set of tools for generating raster images of proteins and molecules
|
|
seqtools
|
Tools for visualising sequence alignments
|
|
ugene
|
Free, open-source, cross-platform bioinformatics toolkit
|
|
|
If you don't find a package, you are looking for, we recommend to search the Ports Collection. If it is there, than it is also in the GhostBSD ports.
|
|
Back to the Office Applications
|