Difference between revisions of "Biology"

From GhostBSD Wiki
Jump to: navigation, search
Line 133: Line 133:
 
|NCBI implementation of Basic Local Alignment Search Tool
 
|NCBI implementation of Basic Local Alignment Search Tool
 
|[[File:Icon FreeBSD.png|100px|link=https://svnweb.freebsd.org/ports/head/biology/ncbi-blast+/pkg-descr?revision=HEAD]] [[File:1329059652.png|35px|link=http://blast.ncbi.nlm.nih.gov]]
 
|[[File:Icon FreeBSD.png|100px|link=https://svnweb.freebsd.org/ports/head/biology/ncbi-blast+/pkg-descr?revision=HEAD]] [[File:1329059652.png|35px|link=http://blast.ncbi.nlm.nih.gov]]
 +
-
 +
|namd
 +
|Computer software for molecular dynamics simulation
 +
|[[File:Icon FreeBSD.png|100px|link=https://svnweb.freebsd.org/ports/head/science/namd/pkg-descr?revision=HEAD]] [[File:1329059652.png|35px|link=https://www.ks.uiuc.edu/Research/namd/]]
 
|-
 
|-
 
|ncbi-cxx-toolkit-
 
|ncbi-cxx-toolkit-

Revision as of 11:58, 19 January 2020

Welcome to theIcon Disti GhostBSD.png Biology
App/Package Abstract Addition or Link
CheckM Quality assessment tool for the microbial genomes Icon FreeBSD.png 1329059652.png
GroopM Metagenomic binning suite Icon FreeBSD.png 1329059652.png
InsightToolkit Insight Toolkit Icon FreeBSD.png 1329059652.png
Jellyfish Fast, memory-efficient counting of k-mers in DNA Icon FreeBSD.png 1329059652.png
abyss Assembly By Short Sequences: parallel, paired-end sequence assembler Icon FreeBSD.png 1329059652.png
afni Advanced Functional Neuro Imaging Icon FreeBSD.png 1329059652.png
artemis DNA sequence viewer and annotation tool Icon FreeBSD.png 1329059652.png
avida Auto-adaptive genetic system designed for ALife research Icon FreeBSD.png 1329059652.png
babel Converts among various molecular file formats Icon FreeBSD.png 1329059652.png
bamtools API and toolkit for handling BAM files 1329059652.png
biococoa Bioinformatics framework Icon FreeBSD.png 1329059652.png
canu Single molecule sequence assembler Icon FreeBSD.png 1329059652.png
cycle Calendar program for women Icon FreeBSD.png 1329059652.png
cytoscape Software to visualize molecular interaction networks, gene expression Icon FreeBSD.png 1329059652.png
dDocent Bash pipeline for RAD sequencing Icon FreeBSD.png 1329059652.png
emboss Collection of open source tools for genetic sequence analysis Icon FreeBSD.png 1329059652.png
figtree Graphical viewer of phylogenetic trees Icon FreeBSD.png 1329059652.png
garlic Molecular viewer, editor, and visualization program Icon FreeBSD.png 1329059652.png
gperiodic Displays a periodic table of the elements Icon FreeBSD.png 1329059652.png
haplohseq Identify regions of allelic imbalance Icon FreeBSD.png 1329059652.png
hhsuite Remote protein homology detection suite Icon FreeBSD.png 1329059652.png
igv Visualization tool for genomic datasets Icon FreeBSD.png 1329059652.png
jalview Viewer and editor for multiple sequence alignments Icon FreeBSD.png 1329059652.png
kallisto Quantify abundances of transcripts from RNA-Seq data Icon FreeBSD.png 1329059652.png
libghemical Support libraries of science/ghemical port Icon FreeBSD.png 1329059652.png
mafft Multiple alignment program for amino acid or nucleotide sequences Icon FreeBSD.png 1329059652.png
massxpert massXpert software for (bio)chemists Icon FreeBSD.png 1329059652.png
minc2 Medical Imaging NetCDF Icon FreeBSD.png 1329059652.png
molden Display molecular orbitals and electron densities in 2D and 3D Icon FreeBSD.png 1329059652.png
mmtf-cpp C++ MMTF format API, decoder and encoder, for molecular structures Icon FreeBSD.png 1329059652.png
ncbi-blast NCBI implementation of Basic Local Alignment Search Tool Icon FreeBSD.png 1329059652.png

-

namd Computer software for molecular dynamics simulation Icon FreeBSD.png 1329059652.png
ncbi-cxx-toolkit- NCBI C++ Toolkit Icon FreeBSD.png 1329059652.png
p5-Bio-ASN1-EntrezGene Regular expression-based Perl Parser for NCBI Entrez Gene Icon FreeBSD.png 1329059652.png
p5-Bio-Cluster BioPerl cluster modules Icon FreeBSD.png 1329059652.png
p5-Bio-Coordinate Modules for working with biological coordinates Icon FreeBSD.png 1329059652.png
p5-Bio-DB-EMBL Database object interface for EMBL entry retrieval Icon FreeBSD.png 1329059652.png
p5-Bio-DB-NCBIHelper Collection of routines useful for queries to NCBI databases Icon FreeBSD.png 1329059652.png
p5-Bio-Das Client-side library for Distributed Genome Annotation System Icon FreeBSD.png 1329059652.png
p5-Bio-Das-Lite Perl extension for the DAS (HTTP+XML) Protocol Icon FreeBSD.png 1329059652.png
p5-Bio-FeatureIO Handler for FeatureIO Icon FreeBSD.png 1329059652.png
p5-Bio-GFF3 Fast low-level functions for parsing and formatting GFF3 Icon FreeBSD.png 1329059652.png
p5-Bio-Glite Perl Interface to G-language Icon FreeBSD.png 1329059652.png
p5-Bio-Graphics Generate GD Images of Bio::Seq Objects Icon FreeBSD.png 1329059652.png
p5-Bio-MAGETAB Data model and utility API for the MAGE-TAB format Icon FreeBSD.png 1329059652.png
p5-Bio-NEXUS Object-oriented Perl API for the NEXUS file format Icon FreeBSD.png 1329059652.png
p5-Bio-Phylo Phylogenetic analysis using Perl Icon FreeBSD.png 1329059652.png
p5-Bio-SCF Read and Update SCF Chromatographic Sequence Files Icon FreeBSD.png 1329059652.png
p5-Bio-Variation BioPerl variation-related functionality 1329059652.png
p5-BioPerl Collection of Perl modules for bioinformatics Icon FreeBSD.png 1329059652.png
p5-BioPerl-Run Wrapper modules for common bioinformatics tools Icon FreeBSD.png 1329059652.png
p5-TrimGalore Wrapper around Cutadapt and FastQC for adapter and quality trimming Icon FreeBSD.png 1329059652.png
pbcopper Core C++ library for Pacific Biosciences tools Icon FreeBSD.png 1329059652.png
prodigal Protein-coding gene prediction for prokaryotic genomes Icon FreeBSD.png 1329059652.png
py27-multiqc Aggregate bioinformatics analysis reports across samples and tools Icon FreeBSD.png 1329059652.png
py27-pymol OpenGL-based molecular visualization system Icon FreeBSD.png 1329059652.png
py37-chainer-chemistry Library for deep learning in biology and chemistry Icon FreeBSD.png 1329059652.png
py37-multiqc Aggregate bioinformatics analysis reports across samples and tools Icon FreeBSD.png 1329059652.png
py37-orange3-bioinformatics Orange add-on providing common functionality for bioinformatics Icon FreeBSD.png 1329059652.png
py37-orange3-single-cell Orange add-on for gene expression of single cell data Icon FreeBSD.png 1329059652.png
pycogent Toolkit for statistical analysis of biological sequences Icon FreeBSD.png 1329059652.png
raster3d Set of tools for generating raster images of proteins and molecules Icon FreeBSD.png 1329059652.png
seqtools Tools for visualising sequence alignments Icon FreeBSD.png 1329059652.png
ugene Free, open-source, cross-platform bioinformatics toolkit Icon FreeBSD.png 1329059652.png
If you don't find a package, you are looking for,
we recommend to search the
Icon FreeBSD.pngPorts Collection. If it is there, than it is also in the GhostBSD ports.
Back to the Icon Disti GhostBSD.pngOffice Applications