Difference between revisions of "Biology"
From GhostBSD Wiki
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|Bioinformatics framework | |Bioinformatics framework | ||
|[[https://svnweb.freebsd.org/ports/head/biology/biococoa/pkg-descr?revision=HEAD]] [[http://bioinformatics.org/biococoa/]] | |[[https://svnweb.freebsd.org/ports/head/biology/biococoa/pkg-descr?revision=HEAD]] [[http://bioinformatics.org/biococoa/]] | ||
| + | |- | ||
| + | |canu | ||
| + | |Single molecule sequence assembler | ||
| + | |[[https://svnweb.freebsd.org/ports/head/biology/canu/pkg-descr?revision=HEAD]] [[https://canu.readthedocs.io/]] | ||
| + | |- | ||
| + | |cycle | ||
| + | |Calendar program for women | ||
| + | |[[https://svnweb.freebsd.org/ports/head/deskutils/cycle/pkg-descr?revision=HEAD]] [[http://cycle.sourceforge.net/]] | ||
| + | |- | ||
| + | |cytoscape | ||
| + | |Software to visualize molecular interaction networks, gene expression | ||
| + | |[[https://svnweb.freebsd.org/ports/head/biology/cytoscape/pkg-descr?revision=HEAD]] [[http://www.cytoscape.org]] | ||
| + | |- | ||
| + | |dDocent | ||
| + | |Bash pipeline for RAD sequencing | ||
| + | |[[https://svnweb.freebsd.org/ports/head/biology/ddocent/pkg-descr?revision=HEAD]] [[http://ddocent.com]] | ||
| + | |- | ||
| + | |emboss | ||
| + | |Collection of open source tools for genetic sequence analysis | ||
| + | |[[https://svnweb.freebsd.org/ports/head/biology/emboss/pkg-descr?revision=HEAD]] [[http://www.emboss.org/]] | ||
| + | |- | ||
| + | |figtree | ||
| + | |Graphical viewer of phylogenetic trees | ||
| + | |[[https://svnweb.freebsd.org/ports/head/biology/figtree/pkg-descr?revision=HEAD]] [[http://tree.bio.ed.ac.uk/software/figtree/]] | ||
| + | |- | ||
| + | |garlic | ||
| + | |Molecular viewer, editor, and visualization program | ||
| + | |[[https://svnweb.freebsd.org/ports/head/biology/garlic/pkg-descr?revision=HEAD]] [[http://www.zucic.org/garlic/]] | ||
| + | |- | ||
| + | |gperiodic | ||
| + | |Displays a periodic table of the elements | ||
| + | |[[https://svnweb.freebsd.org/ports/head/biology/gperiodic/pkg-descr?revision=HEAD]] [[http://www.frantz.fi/software/gperiodic.php]] | ||
| + | |- | ||
| + | |haplohseq | ||
| + | |Identify regions of allelic imbalance | ||
| + | |[[https://svnweb.freebsd.org/ports/head/biology/haplohseq/pkg-descr?revision=HEAD]] [[https://sites.google.com/site/integrativecancergenomics/software/haplohseq]] | ||
| + | |- | ||
| + | |hhsuite | ||
| + | |Remote protein homology detection suite | ||
| + | |[[https://svnweb.freebsd.org/ports/head/biology/hhsuite/pkg-descr?revision=HEAD]] [[https://github.com/soedinglab/hh-suite]] | ||
| + | |- | ||
| + | |igv | ||
| + | |Visualization tool for genomic datasets | ||
| + | |[[https://svnweb.freebsd.org/ports/head/biology/igv/pkg-descr?revision=HEAD]] [[https://software.broadinstitute.org/software/igv/]] | ||
| + | |- | ||
| + | | | ||
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Revision as of 05:12, 15 January 2020
Welcome to the Biology
|
| App/Package | Abstract | Addition or Link |
|---|---|---|
| CheckM | Quality assessment tool for the microbial genomes | [[1]] [[2]] |
| GroopM | Metagenomic binning suite | [[3]] [[4]] |
| InsightToolkit | Insight Toolkit | [[5]] [[6]] |
| Jellyfish | Fast, memory-efficient counting of k-mers in DNA | [[7]] [[8]] |
| abyss | Assembly By Short Sequences: parallel, paired-end sequence assembler | [[9]] [[10]] |
| afni | Advanced Functional Neuro Imaging | [[11]] [[12]] |
| artemis | DNA sequence viewer and annotation tool | [[13]] [[14]] |
| avida | Auto-adaptive genetic system designed for ALife research | [[15]] [[16]] |
| babel | Converts among various molecular file formats | [[17]] [[18]] |
| bamtools | API and toolkit for handling BAM files | [[19]] |
| biococoa | Bioinformatics framework | [[20]] [[21]] |
| canu | Single molecule sequence assembler | [[22]] [[23]] |
| cycle | Calendar program for women | [[24]] [[25]] |
| cytoscape | Software to visualize molecular interaction networks, gene expression | [[26]] [[27]] |
| dDocent | Bash pipeline for RAD sequencing | [[28]] [[29]] |
| emboss | Collection of open source tools for genetic sequence analysis | [[30]] [[31]] |
| figtree | Graphical viewer of phylogenetic trees | [[32]] [[33]] |
| garlic | Molecular viewer, editor, and visualization program | [[34]] [[35]] |
| gperiodic | Displays a periodic table of the elements | [[36]] [[37]] |
| haplohseq | Identify regions of allelic imbalance | [[38]] [[39]] |
| hhsuite | Remote protein homology detection suite | [[40]] [[41]] |
| igv | Visualization tool for genomic datasets | [[42]] [[43]] |
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