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[ Source: debian-med  ]

Package: med-bio (1.10ubuntu1) [universe]

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Debian Med micro-biology packages

Other Packages Related to med-bio

  • depends
  • recommends
  • suggests
  • enhances
  • dep: med-config (= 1.10ubuntu1)
    Debian Med general config package
  • dep: med-tasks (= 1.10ubuntu1)
    Debian Med tasks for tasksel
  • rec: abacas
    Algorithm Based Automatic Contiguation of Assembled Sequences
  • rec: acedb-other
    retrieval of DNA or protein sequences
  • rec: acedb-other-belvu
    multiple sequence alignment editor
  • rec: acedb-other-dotter
    visualisation of sequence similarity
  • rec: adun.app
    Molecular Simulator for GNUstep
  • rec: alien-hunter
    Interpolated Variable Order Motifs to identify horizontally acquired DNA
  • rec: altree
    program to perform phylogeny-based association and localization analysis
  • rec: amap-align
    Protein multiple alignment by sequence annealing
  • rec: ampliconnoise
    Programs for the removal of noise from 454 sequenced PCR amplicons
  • rec: autodock
    analysis of ligand binding to protein structure
  • rec: autodock-vina
    docking of small molecules to proteins
  • rec: autogrid
    pre-calculate binding of ligands to their receptor
  • rec: bedtools
    suite of utilities for comparing genomic features
  • rec: biomaj
    Biological banks updater
  • rec: blast2
    Basic Local Alignment Search Tool
  • rec: bowtie
    ultrafast memory-efficient short read aligner
  • rec: boxshade
    Pretty-printing of multiple sequence alignments
  • rec: bwa
    Burrows-Wheeler Aligner
  • rec: clonalframe
    inference of bacterial microevolution using multilocus sequence data
  • rec: clustalw
    global multiple nucleotide or peptide sequence alignment
  • rec: clustalx
    Multiple alignment of nucleic acid and protein sequences (graphical interface)
  • rec: dialign
    Segment-based multiple sequence alignment
  • rec: dialign-tx
    Segment-based multiple sequence alignment
  • rec: disulfinder
    cysteines disulfide bonding state and connectivity predictor
  • rec: dotur
    distance based OTU and richness estimation
  • rec: embassy-domainatrix
    Extra EMBOSS commands to handle domain classification file
  • rec: embassy-domalign
    Extra EMBOSS commands for protein domain alignment
  • rec: embassy-domsearch
    Extra EMBOSS commands to search for protein domains
  • rec: emboss
    the european molecular biology open software suite
  • rec: exonerate
    generic tool for pairwise sequence comparison
  • rec: fastdnaml
    Tool for construction of phylogenetic trees of DNA sequences
  • rec: fastlink
    faster version of pedigree programs of Linkage
  • rec: fastx-toolkit
    FASTQ/A short nucleotide reads pre-processing tools
  • rec: figtree
    graphical phylogenetic tree viewer
  • rec: filo
    FILe and stream Operations
  • rec: gamgi
    General Atomistic Modelling Graphic Interface (GAMGI)
  • rec: garlic
    A visualization program for biomolecules
  • rec: gbrowse
    GMOD Generic Genome Browser
  • rec: gdpc
    visualiser of molecular dynamic simulations
  • rec: gff2aplot
    pair-wise alignment-plots for genomic sequences in PostScript
  • rec: gff2ps
    produces PostScript graphical output from GFF-files
  • rec: ghemical
    GNOME molecular modelling environment
  • rec: glam2
    gapped protein motifs from unaligned sequences
  • rec: gromacs
    Molecular dynamics simulator, with building and analysis tools
  • rec: hmmer
    profile hidden Markov models for protein sequence analysis
  • rec: infernal
    inference of RNA secondary structural alignments
  • rec: jalview
    multiple alignment editor
  • rec: jellyfish
    count k-mers in DNA sequences
  • rec: jmol
    Molecular Viewer
  • rec: kalign
    Global and progressive multiple sequence alignment
  • rec: last-align
    genome-scale comparison of biological sequences
  • rec: loki
    MCMC linkage analysis on general pedigrees
  • rec: mafft
    Multiple alignment program for amino acid or nucleotide sequences
  • rec: maq
    maps short fixed-length polymorphic DNA sequence reads to reference sequences
  • rec: maqview
    graphical read alignment viewer for short gene sequences
  • rec: massxpert
    linear polymer mass spectrometry software
  • rec: melting
    compute the melting temperature of nucleic acid duplex
  • rec: mipe
    Tools to store PCR-derived data
  • rec: mira-assembler
    Whole Genome Shotgun and EST Sequence Assembler
  • rec: mlv-smile
    Find statistically significant patterns in sequences
  • rec: mothur
    sequence analysis suite for research on microbiota
  • rec: mrbayes
    Bayesian Inference of Phylogeny
  • rec: mummer
    Efficient sequence alignment of full genomes
  • rec: muscle
    Multiple alignment program of protein sequences
  • rec: mustang
    multiple structural alignment of proteins
  • rec: ncbi-blast+
    next generation suite of BLAST sequence search tools
  • rec: ncbi-epcr
    Tool to test a DNA sequence for the presence of sequence tagged sites
  • rec: ncbi-tools-bin
    NCBI libraries for biology applications (text-based utilities)
  • rec: ncbi-tools-x11
    NCBI libraries for biology applications (X-based utilities)
  • rec: ncoils
    coiled coil secondary structure prediction
  • rec: njplot
    phylogenetic tree drawing program
  • rec: perlprimer
    Graphical design of primers for PCR
  • rec: phyml
    Phylogenetic estimation using Maximum Likelihood
  • rec: picard-tools
    Command line tools to manipulate SAM and BAM files
  • rec: plasmidomics
    draw plasmids and vector maps with PostScript graphics export
  • rec: plink
    whole-genome association analysis toolset
  • rec: poa
    Partial Order Alignment for multiple sequence alignment
  • rec: populations
    population genetic software
  • rec: primer3
    Tool to design flanking oligo nucleotides for DNA amplification
  • rec: probalign
    multiple sequence alignment using partition function posterior probabilities
  • rec: probcons
    PROBabilistic CONSistency-based multiple sequence alignment
  • rec: proda
    multiple alignment of protein sequences
  • rec: profnet-bval
    neural network architecture for profbval
  • rec: profnet-chop
    neural network architecture for profchop
  • rec: profnet-con
    neural network architecture for profcon
  • rec: profnet-isis
    neural network architecture for profisis
  • rec: profnet-md
    neural network architecture for metadisorder
  • rec: profnet-norsnet
    neural network architecture for norsnet
  • rec: profnet-prof
    neural network architecture for profacc
  • rec: profnet-snapfun
    neural network architecture for snapfun
  • rec: profphd-net
    neural network architecture for profphd
  • rec: pymol
    Molecular Graphics System
  • rec: python-cogent
    framework for genomic biology
  • rec: r-bioc-hilbertvis
    GNU R package to visualise long vector data
  • rec: r-cran-qtl
    GNU R package for genetic marker linkage analysis
  • rec: r-other-bio3d
    GNU R package for biological structure analysis
  • rec: r-other-mott-happy
    GNU R package for fine-mapping complex diseases
  • rec: rasmol
    Visualize biological macromolecules
  • rec: raster3d
    tools for generating images of proteins or other molecules
  • rec: raxml
    Randomized Axelerated Maximum Likelihood of phylogenetic trees
  • rec: readseq
    Conversion between sequence formats
  • rec: rnahybrid
    Fast and effective prediction of microRNA/target duplexes
  • rec: samtools
    processing sequence alignments in SAM and BAM formats
  • rec: seq-gen
    simulate the evolution of nucleotide or amino acid sequences
  • rec: sibsim4
    align expressed RNA sequences on a DNA template
  • rec: sigma-align
    Simple greedy multiple alignment of non-coding DNA sequences
  • rec: sim4
    tool for aligning cDNA and genomic DNA
  • rec: squizz
    Converter for genetic sequences and alignments
  • rec: ssake
    genomics application for assembling millions of very short DNA sequences
  • rec: staden-io-lib-utils
    programs for maniuplating DNA sequencing files
  • rec: t-coffee
    Multiple Sequence Alignment
  • rec: tabix
    generic indexer for TAB-delimited genome position files
  • rec: theseus
    superimpose macromolecules using maximum likelihood
  • rec: tigr-glimmer
    Gene detection in archea and bacteria
  • rec: tm-align
    structual alignment of proteins
  • rec: transtermhp
    find rho-independent transcription terminators in bacterial genomes
  • rec: tree-puzzle
    Reconstruction of phylogenetic trees by maximum likelihood
    or tree-ppuzzle
    Parallelized reconstruction of phylogenetic trees by maximum likelihood
  • rec: treeviewx
    Displays and prints phylogenetic trees
  • rec: vcftools
    designed for working with VCF files
  • rec: velvet
    Nucleic acid sequence assembler for very short reads
  • rec: wise
    comparison of biopolymers, commonly DNA and protein sequences
  • sug: abyss
    de novo, parallel, sequence assembler for short reads
  • sug: act
    Package not available
  • sug: agdbnet
    Package not available
  • sug: amos-assembler
    Package not available
  • sug: amoscmp
    Package not available
  • sug: anfo
    Package not available
  • sug: apollo
    Package not available
  • sug: arachne
    Package not available
  • sug: arb
    Package not available
  • sug: artemis
    Package not available
  • sug: asap
    Package not available
  • sug: augustus
    Package not available
  • sug: autodocktools
    GUI to help set up, launch and analyze AutoDock dockings
  • sug: axparafit
    Package not available
  • sug: axpcoords
    Package not available
  • sug: bagphenotype
    Package not available
  • sug: ballview
    free molecular modeling and molecular graphics tool
  • sug: bambus
    Package not available
  • sug: beads
    Package not available
  • sug: beast-mcmc
    Package not available
  • sug: big-blast
    Package not available
  • sug: bio-mauve
    Package not available
  • sug: blixem
    Package not available
  • sug: btk-core
    Package not available
  • sug: cactus
    Package not available
  • sug: caftools
    Package not available
  • sug: cain
    simulations of chemical reactions
  • sug: cap3
    Package not available
  • sug: cd-hit
    suite of programs designed to quickly group sequences
  • sug: cdna-db
    Package not available
  • sug: chado
    Package not available
  • sug: cinema
    Package not available
  • sug: circos
    Package for visualizing data and information
  • sug: clonalorigin
    Package not available
  • sug: clustalo
    General purpose multiple sequence alignment program for proteins
  • sug: clustalw-mpi
    MPI-distributed global sequence alignment with ClustalW
  • sug: cluster3
    Package not available
  • sug: cmap
    Package not available
  • sug: coalesce
    Package not available
  • sug: codonw
    Package not available
  • sug: compclust
    Package not available
  • sug: contralign
    Package not available
  • sug: coot
    Package not available
  • sug: copycat
    Package not available
  • sug: crossbow
    Package not available
  • sug: cufflinks
    Transcript assembly, differential expression and regulation for RNA-Seq
  • sug: cytoscape
    Package not available
  • sug: das-proserver
    Package not available
  • sug: dazzle
    Package not available
  • sug: decipher
    Package not available
  • sug: e-hive
    Package not available
  • sug: ecell
    Package not available
  • sug: eigensoft
    Package not available
  • sug: elph
    Package not available
  • sug: embassy-phylip
    EMBOSS conversions of the programs in the phylip package
  • sug: emboss-explorer
    web-based GUI to EMBOSS
  • sug: emboss-kaptain
    Package not available
  • sug: ensembl
    Package not available
  • sug: est-db
    Package not available
  • sug: estferret
    Package not available
  • sug: estscan
    Package not available
  • sug: exalt
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  • sug: excavator
    Package not available
  • sug: fas
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  • sug: fasta
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  • sug: fasttree
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  • sug: figaro
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  • sug: finex
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  • sug: fluctuate
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  • sug: forester
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  • sug: forge
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  • sug: galaxy
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  • sug: gbioseq
    Package not available
  • sug: gbrowse-syn
    Package not available
  • sug: genemark
    Package not available
  • sug: genesplicer
    Package not available
  • sug: genetrack
    Package not available
  • sug: genezilla
    Package not available
  • sug: genographer
    Package not available
  • sug: gentle
    suite to plan genetic cloning
  • sug: glimmerhmm
    Package not available
  • sug: gmap
    spliced and SNP-tolerant alignment for mRNA and short reads
  • sug: gmv
    Package not available
  • sug: grogui
    Package not available
  • sug: haploview
    Package not available
  • sug: hawkeye
    Package not available
  • sug: hexamer
    Package not available
  • sug: hilbertvisgui
    Package not available
  • sug: igv
    Integrative Genomics Viewer
  • sug: jbrowse
    Package not available
  • sug: jigsaw
    Package not available
  • sug: jstreeview
    Package not available
  • sug: jtreeview
    Package not available
  • sug: kempbasu
    Package not available
  • sug: lagan
    Package not available
  • sug: lamarc
    Package not available
  • sug: logomat-m
    Package not available
  • sug: lucy
    Package not available
  • sug: mage2tab
    Package not available
  • sug: maker2
    Package not available
  • sug: martj
    Package not available
  • sug: maude
    high-performance logical framework
  • sug: mauvealigner
    Package not available
  • sug: maxd
    Package not available
  • sug: melting-gui
    graphical interface to compute the melting temperature of nucleic acid duplex
  • sug: meme
    Package not available
  • sug: mesquite
    Package not available
  • sug: metarep
    Package not available
  • sug: microbiomeutil
    Package not available
  • sug: migrate
    Package not available
  • sug: minimus
    Package not available
  • sug: mirbase
    Package not available
  • sug: mobyle
    Web portal that provides web forms for command-line software
  • sug: molekel
    Package not available
  • sug: molphy
    Package not available
  • sug: mozilla-biofox
    Package not available
  • sug: msatfinder
    Package not available
  • sug: mugsy
    Package not available
  • sug: mummergpu
    Package not available
  • sug: murasaki
    Package not available
  • sug: mview
    Package not available
  • sug: neobio
    Package not available
  • sug: ngila
    Package not available
  • sug: obo-edit
    Package not available
  • sug: oligoarrayaux
    Package not available
  • sug: omegamap
    Package not available
  • sug: operondb
    Package not available
  • sug: pal2nal
    Package not available
  • sug: paml
    Package not available
  • sug: partigene
    Package not available
  • sug: patman
    Package not available
  • sug: pcma
    Package not available
  • sug: pdb2pqr
    Preparation of protein structures for electrostatics calculations
  • sug: pfaat
    Package not available
  • sug: pftools
    Package not available
  • sug: phagefinder
    Package not available
  • sug: phpphylotree
    Package not available
  • sug: phylip
    package of programs for inferring phylogenies
  • sug: phylographer
    Package not available
  • sug: phylowin
    Package not available
  • sug: plato
    Package not available
  • sug: prank
    Package not available
  • sug: proalign
    Package not available
  • sug: profit
    Package not available
  • sug: prot4est
    Package not available
  • sug: pyrophosphate-tools
    Package not available
  • sug: python-orange
    Package not available
  • sug: python-pynast
    virtual package provided by pynast
  • sug: python-rdkit
    Collection of cheminformatics and machine-learning software
  • sug: python-reaper
    Package not available
  • sug: qiime
    Quantitative Insights Into Microbial Ecology
  • sug: qtlcart
    Package not available
  • sug: r-ape
    Package not available
  • sug: r-other-genabel
    virtual package provided by r-cran-genabel
  • sug: r-other-valdar-bagphenotype.library
    Package not available
  • sug: raccoon
    preparation of in silico drug screening projects
  • sug: ray-denovoassembler
    Package not available
  • sug: rbs-finder
    Package not available
  • sug: rdp-classifier
    Package not available
  • sug: recombine
    Package not available
  • sug: repeatfinder
    Package not available
  • sug: repeatmasker
    Package not available
  • sug: reputer
    Package not available
  • sug: rmblast
    Package not available
  • sug: roche454ace2caf
    Package not available
  • sug: rose
    Package not available
  • sug: rosetta
    Package not available
  • sug: sap
    Package not available
  • sug: seaview
    Multiplatform interface for sequence alignment and phylogeny
  • sug: seqan-apps
    C++ library for the analysis of biological sequences
  • sug: sequenceconverter.app
    Package not available
  • sug: smalt
    Package not available
  • sug: snap
    Package not available
  • sug: soapdenovo
    Package not available
  • sug: spice
    Package not available
  • sug: splitstree
    Package not available
  • sug: sra-sdk
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  • sug: ssaha
    Package not available
  • sug: strap
    Package not available
  • sug: tacg
    Package not available
  • sug: taverna
    Package not available
  • sug: taxinspector
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  • sug: tetra
    Package not available
  • sug: tigr-assembler
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  • sug: tophat
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  • sug: trace2dbest
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  • sug: tracetuner
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  • sug: treebuilder3d
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  • sug: treeplot
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  • sug: treetime
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  • sug: treevolve
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  • sug: trf
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  • sug: tripal
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  • sug: trnascan-se
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  • sug: twain
    Package not available
  • sug: ugene
    integrated bioinformatics toolkit
  • sug: uniprime
    Package not available
  • sug: vienna-rna
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  • sug: vmd
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  • sug: wgs-assembler
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  • sug: x-tandem-pipeline
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  • sug: zodiac
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