Package: med-cloud (3.7)

[ Source: debian-med  ]

클라우드 컴퓨팅에서 사용할 수 있는 Debian Med 생물정보학 어플리케이션

이 메타패키지는 그래픽 툴킷에 의존하지 않고 그래서 공간이 제한될 수 있는 클라우드 컴퓨팅 클러스터에서 사용 가능한 시스템 이미지에 알맞은 생명 과학용 분자 생물학, 구조 생물학 및 생물 정보학 관련 데비안 패키지를 설치할 것입니다.

Tags: Field: Molecular Biology, Role: Metapackage

Other Packages Related to med-cloud

• dep: med-config (= 3.7)

  Debian Med 일반 구성 패키지

• dep: med-tasks (= 3.7)

  Debian Med tasks for tasksel

• rec: abyss

  짧은 읽기를 위한 de novo, 병렬, 시퀀스 어셈블러

• rec: acedb-other

  retrieval of DNA or protein sequences

• rec: aevol

  실리코에서 진화 실험을 실행하는 디지탈 유전학 모델

• 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

  454 시퀀싱 PCR 앰플리콘의 노이즈 제거

• rec: anfo

  MPG의 단편 서열 정렬기/매퍼

• rec: aragorn

  tRNA and tmRNA detection in nucleotide sequences

• rec: arden

  specificity control for read alignments using an artificial reference

• rec: autodock

  analysis of ligand binding to protein structure

• rec: autodock-vina

  docking of small molecules to proteins

• rec: autogrid

  리간드와 수용체 결합을 미리 계산

• rec: bamtools

  BAM (게놈 정렬) 파일을 조작하기 위한 툴킷

• rec: bedtools

  suite of utilities for comparing genomic features

• rec: bioperl

  Perl tools for computational molecular biology

• rec: bioperl-run

  BioPerl wrappers: scripts

• rec: biosquid

  utilities for biological sequence analysis

• rec: bowtie

  초고속 메모리 효율적인 짧은 읽기 정렬기

• rec: bowtie2

  ultrafast memory-efficient short read aligner

• rec: boxshade

  Pretty-printing of multiple sequence alignments

• rec: bwa

  Burrows-Wheeler Aligner

• rec: cassiopee

  index and search tool in genomic sequences

• rec: cd-hit

  suite of programs designed to quickly group sequences

• rec: cdbfasta

  Constant DataBase indexing and retrieval tools for multi-FASTA files

• rec: circos

  데이타를 시각화하는 플로터

• rec: clearcut

  extremely efficient phylogenetic tree reconstruction

• rec: clonalframe

  multilocus 시퀀스 데이터를 사용하여 세균 소진화 추론

• rec: clustalo

  General-purpose multiple sequence alignment program for proteins

• rec: clustalw

  global multiple nucleotide or peptide sequence alignment

• rec: concavity

  predictor of protein ligand binding sites from structure and conservation

• rec: conservation-code

  protein sequence conservation scoring tool

• rec: datamash

  명령행 인터페이스용 통계 도구

• rec: dialign

  Segment-based multiple sequence alignment

• rec: dialign-tx

  Segment-based multiple sequence alignment

• rec: discosnp

  discovering Single Nucleotide Polymorphism from raw set(s) of reads

• rec: disulfinder

  시스테인 이황화 결합 상태 및 연결 예측자

• rec: dnaclust

  tool for clustering millions of short DNA sequences

• 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

  기존의 Linkage 보다 더 빠른 버젼

• rec: fastqc

  높은 처리량 시퀀스 데이타를 위한 품질 관리

• rec: fasttree

  phylogenetic trees from alignments of nucleotide or protein sequences

• rec: fitgcp

  fitting genome coverage distributions with mixture models

• rec: flexbar

  flexible barcode and adapter removal for sequencing platforms

• rec: freecontact

  fast protein contact predictor

• rec: gasic

  genome abundance similarity correction

• rec: genometools

  versatile genome analysis toolkit

• rec: gff2aplot

  pair-wise alignment-plots for genomic sequences in PostScript

• rec: gff2ps

  produces PostScript graphical output from GFF-files

• rec: glam2

  gapped protein motifs from unaligned sequences

• rec: gmap

  spliced and SNP-tolerant alignment for mRNA and short reads

• rec: grinder

  Versatile omics shotgun and amplicon sequencing read simulator

• rec: gromacs

  Molecular dynamics simulator, with building and analysis tools

• rec: hhsuite

  sensitive protein sequence searching based on HMM-HMM alignment

• rec: hisat2

  graph-based alignment of short nucleotide reads to many genomes

• rec: hmmer

  profile hidden Markov models for protein sequence analysis

• rec: idba

  iterative De Bruijn Graph short read assemblers

• rec: infernal

  inference of RNA secondary structural alignments

• rec: jellyfish

  count k-mers in DNA sequences

• rec: kalign

  Global and progressive multiple sequence alignment

• rec: kissplice

  Detection of various kinds of polymorphisms in RNA-seq data

• rec: last-align

  genome-scale comparison of biological sequences

• rec: loki

  MCMC linkage analysis on general pedigrees

• rec: macs

  Model-based Analysis of ChIP-Seq on short reads sequencers

• rec: mafft

  Multiple alignment program for amino acid or nucleotide sequences

• rec: mapsembler2

  bioinformatics targeted assembly software

• rec: maq

  maps short fixed-length polymorphic DNA sequence reads to reference sequences

• rec: melting

  핵산 듀플렉스의 용해 온도 계산

• rec: minia

  short-read biological sequence assembler

• rec: mipe

  PCR 파생 데이타 저장 도구

• rec: mira-assembler

  전체 게놈 샷건 및 EST 시퀀스 어셈블러

• rec: mlv-smile

  Find statistically significant patterns in sequences

• rec: mothur

  미생물학 연구를 위한 서열 분석 모음

• 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-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: ncoils

  coiled coil secondary structure prediction

• rec: neobio

  computes alignments of amino acid and nucleotide sequences

• rec: paraclu

  Parametric clustering of genomic and transcriptomic features

• rec: parsinsert

  Parsimonious Insertion of unclassified sequences into phylogenetic trees

• rec: pdb2pqr

  Preparation of protein structures for electrostatics calculations

• rec: perm

  efficient mapping of short reads with periodic spaced seeds

• rec: phyml

  Phylogenetic estimation using Maximum Likelihood

• rec: phyutility

  simple analyses or modifications on both phylogenetic trees and data matrices

• rec: picard-tools

  Command line tools to manipulate SAM and BAM files

• rec: plink

  whole-genome association analysis toolset

• rec: plink1.9

  whole-genome association analysis toolset

• rec: plink2

  whole-genome association analysis toolset

• rec: poa

  다중 서열 배치를 위한 부분 순서 배치

• rec: prank

  Probabilistic Alignment Kit for DNA, codon and amino-acid sequences

• rec: prime-phylo

  bayesian estimation of gene trees taking the species tree into account

• rec: primer3

  tool to design flanking oligo nucleotides for DNA amplification

• rec: probabel

  Toolset for Genome-Wide Association Analysis

• rec: probcons

  PROBabilistic CONSistency-based multiple sequence alignment

• rec: proda

  단백질 시퀀스의 다중 정열

• rec: prodigal

  Microbial (bacterial and archaeal) gene finding program

• rec: python3-biomaj3-cli

  BioMAJ client

• rec: python3-biopython

  Python3 library for bioinformatics

• rec: python3-cogent3

  framework for genomic biology

• rec: qiime

  Quantitative Insights Into Microbial Ecology

• rec: r-bioc-edger

  R의 디지털 유전자 발현 데이터에 대한 실증적 분석

• rec: r-bioc-hilbertvis

  GNU R package to visualise long vector data

• rec: r-cran-pvclust

  Hierarchical Clustering with P-Values via Multiscale Bootstrap

• rec: r-cran-qtl

  GNU R package for genetic marker linkage analysis

• rec: r-cran-vegan

  Community Ecology Package for R

• rec: r-other-mott-happy.hbrem

  GNU R package for fine-mapping complex diseases

• rec: raster3d

  tools for generating images of proteins or other molecules

• rec: readseq

  Conversion between sequence formats

• rec: rnahybrid

  Fast and effective prediction of microRNA/target duplexes

• rec: rtax

  Classification of sequence reads of 16S ribosomal RNA gene

• rec: samtools

  SAM, BAM, CRAM 형식에서 시퀀스 정렬 처리

• rec: seqan-apps

  C++ library for the analysis of biological 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: smalt

  Sequence Mapping and Alignment Tool

• rec: snap

  location of genes from DNA sequence with hidden markov model

• rec: soapdenovo

  short-read assembly method to build de novo draft assembly

• rec: soapdenovo2

  short-read assembly method to build de novo draft assembly

• 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 manipulating DNA sequencing files

• rec: t-coffee

  Multiple Sequence Alignment

• rec: tabix

  TAB으로 구분된 게놈 위치 파일용 일반 인덱서

• rec: theseus

  superimpose macromolecules using maximum likelihood

• rec: tigr-glimmer

  Gene detection in archea and bacteria

• rec: tree-puzzle

  Reconstruction of phylogenetic trees by maximum likelihood

  or tree-ppuzzle

  최대 가능성에 의한 계통 발생 수의 병렬 재구성

• rec: vcftools

  VCF 파일 작업을 위한 도구 모음

• rec: velvet

  Nucleic acid sequence assembler for very short reads

• rec: wise

  comparison of biopolymers, like DNA and protein sequences

• rec: zalign

  parallel local alignment of biological sequences

• sug: bagpipe

  Package not available

• sug: blast2

  Package not available

• sug: cufflinks

  Transcript assembly, differential expression and regulation for RNA-Seq

• sug: embassy-phylip

  Package not available

• sug: giira

  Package not available

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