Package: med-bio (1.13.2)

[ Source: debian-med  ]

Debian Med micro-biology packages

This metapackage will install Debian packages related to molecular biology, structural biology and bioinformatics for use in life sciences.

Tags: Field: Biology, Role: Metapackage, Application Suite: Debian

Other Packages Related to med-bio

• dep: med-config (= 1.13.2)

  Debian Med general config package

• dep: med-tasks (= 1.13.2)

  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: ballview

  free molecular modeling and molecular graphics tool

• rec: bedtools

  suite of utilities for comparing genomic features

• rec: biomaj

  biological data-bank updater

• rec: blast2

  基本的なローカル配列検索ツール

• rec: bowtie

  ultrafast memory-efficient short read aligner

• rec: bowtie2

  ultrafast memory-efficient short read aligner

• rec: boxshade

  多重配列アライメントのプリティプリンティング

• rec: bwa

  Burrows-Wheeler Aligner

• rec: cd-hit

  suite of programs designed to quickly group sequences

• rec: clonalframe

  inference of bacterial microevolution using multilocus sequence data

• rec: clustalo

  General purpose multiple sequence alignment program for proteins

• 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

  セグメントベースの多重配列アライメント

• rec: disulfinder

  cysteines disulfide bonding state and connectivity predictor

• rec: dotur

  distance based OTU and richness estimation

• rec: dssp

  protein secondary structure assignment based on 3D structure

• 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

  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: fasttree

  phylogenetic trees from alignments of nucleotide or protein sequences

• rec: fastx-toolkit

  FASTQ/A short nucleotide reads pre-processing tools

• rec: ffindex

  simple index/database for huge amounts of small files

• rec: figtree

  グラフィカルな系統樹ビューア

• rec: filo

  FILe and stream Operations

• rec: gamgi

  General Atomistic Modelling Graphic Interface (GAMGI)

• rec: garlic

  生体分子の視覚化プログラム

• rec: gbrowse

  GMOD Generic Genome Browser

• rec: gdpc

  分子動力学シミュレーションの視覚化プログラム

• rec: gentle

  suite to plan genetic cloning

• rec: gff2aplot

  PostScript によるゲノム配列用のペアワイズアライメント (整列) プロット

• rec: gff2ps

  GFF ファイルから PostScript 画像出力を作成

• rec: ghemical

  GNOME molecular modelling environment

• rec: glam2

  gapped protein motifs from unaligned sequences

• rec: grinder

  Versatile omics shotgun and amplicon sequencing read simulator

• rec: gromacs

  構築と解析ツールを含む分子動力学シミュレータ

• rec: hhsuite

  sensitive protein sequence searching based on HMM-HMM alignment

• rec: hmmer

  タンパク質配列解析用のプロファイル隠れマルコフモデル

• 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

  グローバルおよびプログレッシブ多重配列アライメント

• rec: last-align

  genome-scale comparison of biological sequences

• rec: librg-utils-perl

  parsers and format conversion utilities used by (e.g.) profphd

• rec: loki

  一般的な家系の MCMC 連鎖分析

• 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

  PCR 派生データ保存用ツール

• 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

  遺伝子全体の効率的な配列アライメント

• rec: muscle

  タンパク質配列のマルチプルアライメントプログラム

• rec: mustang

  multiple structural alignment of proteins

• rec: ncbi-blast+

  next generation suite of BLAST sequence search tools

• rec: ncbi-epcr

  DNA 配列への sequence tagged sites の存在をテストするツール

• rec: ncbi-tools-bin

  NCBI libraries for biology applications (text-based utilities)

• rec: ncbi-tools-x11

  生物学アプリケーション用 NCBI ライブラリ (Xベースユーティリティ)

• rec: ncoils

  coiled coil secondary structure prediction

• rec: neobio

  pairwise sequence alignments

• rec: njplot

  phylogenetic tree drawing program

• rec: perlprimer

  PCR 用プライマをグラフィカルに設計

• rec: phyml

  Phylogenetic estimation using Maximum Likelihood

• rec: picard-tools

  Command line tools to manipulate SAM and BAM files

• rec: plasmidomics

  プラスミドおよびベクタマップの描画と PostScript 画像出力

• rec: plink

  whole-genome association analysis toolset

• rec: poa

  Partial Order Alignment for multiple sequence alignment

• rec: populations

  population genetic software

• rec: primer3

  DNA 増幅用隣接オリゴヌクレオチド設計ツール

• rec: probalign

  multiple sequence alignment using partition function posterior probabilities

• rec: probcons

  確率的で整合性に基づく多重配列アライメント

• rec: proda

  タンパク質配列のマルチプルアライメント

• 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

  secondary structure and solvent accessibility predictor

• rec: profphd-net

  neural network architecture for profphd

• rec: profphd-utils

  profphd helper utilities convert_seq and filter_hssp

• rec: proftmb

  per-residue prediction of bacterial transmembrane beta barrels

• rec: pymol

  Molecular Graphics System

• rec: pynast

  alignment of short DNA sequences

• rec: python-cogent

  framework for genomic biology

• rec: qiime

  Quantitative Insights Into Microbial Ecology

• rec: r-bioc-cummerbund

  tool for analysis of Cufflinks RNA-Seq output

• rec: r-bioc-hilbertvis

  GNU R package to visualise long vector data

• rec: r-cran-genabel

  GNU R package for genome-wide SNP association analysis

• 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

  生化学の高分子を可視化

• 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: reprof

  protein secondary structure and accessibility predictor

• rec: rnahybrid

  Fast and effective prediction of microRNA/target duplexes

• rec: samtools

  processing sequence alignments in SAM and BAM formats

• rec: sibsim4

  DNA テンプレート上で expressed RNA 配列を整列

• rec: sigma-align

  Simple greedy multiple alignment of non-coding DNA sequences

• rec: sim4

  cDNA とゲノム DNA の整列用ツール

• rec: squizz

  Converter for genetic sequences and alignments

• rec: sra-toolkit

  utilities for the NCBI Sequence Read Archive

• 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

  多重配列アライメント

• rec: tabix

  generic indexer for TAB-delimited genome position files

• rec: theseus

  superimpose macromolecules using maximum likelihood

• rec: tigr-glimmer

  古細菌やバクテリアから遺伝子を発見

• rec: tm-align

  structual alignment of proteins

• rec: transtermhp

  find rho-independent transcription terminators in bacterial genomes

• rec: tree-puzzle

  最尤法による系統樹の再構築

  or tree-ppuzzle

  最尤法による系統樹の再構築 (並列化版)

• rec: treeviewx

  Displays and prints phylogenetic trees

• rec: vcftools

  designed for working with VCF files

• rec: velvet

  非常に短いリード用塩基配列アセンブラ

• rec: wise

  生体高分子の比較、 一般に DNA 配列とタンパク質配列

• sug: abyss

  de novo, parallel, sequence assembler for short reads

• sug: act

  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: bambus

  Package not available

• sug: bamtools

  Package not available

• sug: beads

  Package not available

• sug: beast-mcmc

  Package not available

• sug: big-blast

  Package not available

• sug: bigsdb

  Package not available

• sug: blimps-utils

  blocks database improved searcher

• 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: cdbfasta

  Package not available

• sug: cdna-db

  Package not available

• sug: cinema

  Package not available

• sug: circos

  plotter for visualizing data

• sug: clonalorigin

  Package not available

• 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: concavity

  Package not available

• sug: conservation-code

  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: edtsurf

  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: ensembl

  Package not available

• sug: est-db

  Package not available

• sug: estferret

  Package not available

• sug: estscan

  Package not available

• sug: exalt

  Package not available

• sug: excavator

  Package not available

• sug: fas

  Package not available

• sug: fasta

  Package not available

• sug: fastqc

  Package not available

• sug: figaro

  Package not available

• sug: finex

  Package not available

• sug: fluctuate

  Package not available

• sug: forester

  Package not available

• sug: forge

  Package not available

• sug: galaxy

  Package not available

• sug: gassst

  Package not available

• 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: genometools

  Package not available

• 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: hmmer2

  Package not available

• sug: igv

  Integrative Genomics Viewer

• sug: jbrowse

  Package not available

• sug: jigsaw

  Package not available

• sug: jstreeview

  Package not available

• sug: kempbasu

  Package not available

• sug: lagan

  Package not available

• sug: lamarc

  Package not available

• sug: logol-bin

  Package not available

• sug: logomat-m

  Package not available

• sug: ltrsift

  Package not available

• sug: lucy

  Package not available

• sug: macs

  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: mosaik-aligner

  Package not available

• sug: mozilla-biofox

  Iceape および Iceweasel ブラウザの為のバイオインフォマティクスツール用拡張機能

• sug: mpsqed

  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: ncbi-seg

  Package not available

• sug: ngila

  Package not available

• sug: norsnet

  Package not available

• sug: norsp

  Package not available

• sug: nw-align

  Package not available

• sug: oases

  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

  Phylogenetic Analysis by Maximum Likelihood (PAML)

• sug: partigene

  Package not available

• sug: patman

  Package not available

• sug: patristic

  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: phy-spread

  analyze and visualize phylogeographic reconstructions

• sug: phylip

  package of programs for inferring phylogenies

• sug: phylographer

  Package not available

• sug: phyloviz-core

  Package not available

• sug: phylowin

  Package not available

• sug: plato

  Package not available

• sug: prank

  Package not available

• sug: predictnls

  Package not available

• sug: predictprotein

  Package not available

• sug: proalign

  Package not available

• sug: profbval

  Package not available

• sug: profisis

  Package not available

• sug: profit

  Package not available

• sug: prot4est

  Package not available

• sug: pscan-tfbs

  Package not available

• sug: psipred

  Package not available

• sug: pyrophosphate-tools

  Package not available

• sug: python-orange

  Package not available

• sug: python-rdkit

  Collection of cheminformatics and machine-learning software

• sug: python-reaper

  Package not available

• sug: qtlcart

  Package not available

• sug: r-ape

  Package not available

• 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: repeatmasker

  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: seq-gen

  simulate the evolution of nucleotide or amino acid sequences

• sug: seqan-apps

  C++ library for the analysis of biological sequences

• sug: seqtk

  Package not available

• sug: sequenceconverter.app

  Package not available

• sug: sga

  Package not available

• sug: sift

  predicts if a substitution in a protein has a phenotypic effect

• sug: smalt

  Package not available

• sug: snap

  Package not available

• sug: snpeff

  Package not available

• sug: soapdenovo

  Package not available

• sug: spice

  Package not available

• sug: splitstree

  Package not available

• sug: spread-phy

  Package not available

• sug: sra-sdk

  Package not available

• sug: ssaha

  Package not available

• sug: strap

  Package not available

• sug: tacg

  Package not available

• sug: taverna

  Package not available

• sug: taxinspector

  Package not available

• sug: tetra

  Package not available

• sug: tigr-assembler

  Package not available

• sug: tigr-glimmer-mg

  Package not available

• sug: tophat

  Package not available

• sug: trace2dbest

  Package not available

• sug: tracetuner

  Package not available

• sug: treebuilder3d

  Package not available

• sug: treetime

  Package not available

• sug: treeview

  Package not available

• sug: tripal

  Package not available

• sug: trnascan-se

  Package not available

• sug: twain

  Package not available

• sug: ugene

  Package not available

• sug: uniprime

  Package not available

• sug: vegan

  Package not available

• sug: vienna-rna

  Package not available

• sug: vmd

  Package not available

• sug: wgs-assembler

  Package not available

• sug: x-tandem-pipeline

  Package not available

• sug: zalign

  Package not available

• sug: zodiac-zeden

  Package not available

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