Balík: spades (3.15.5+dfsg-7)

Odkazy pre spades

Zdroje Debian:

Stiahnuť zdrojový balík spades:

Správcovia:

Externé zdroje:

Domovská stránka [cab.spbu.ru]

Podobné balíky:

genome assembler for single-cell and isolates data sets

The SPAdes – St. Petersburg genome assembler is intended for both standard isolates and single-cell MDA bacteria assemblies. It works with Illumina or IonTorrent reads and is capable of providing hybrid assemblies using PacBio and Sanger reads. You can also provide additional contigs that will be used as long reads.

This package provides the following additional pipelines:

 * metaSPAdes – a pipeline for metagenomic data sets
 * plasmidSPAdes – a pipeline for extracting and assembling plasmids
   from WGS data sets
 * metaplasmidSPAdes – a pipeline for extracting and assembling
   plasmids from metagenomic data sets
 * rnaSPAdes – a de novo transcriptome assembler from RNA-Seq data
 * truSPAdes – a module for TruSeq barcode assembly
 * biosyntheticSPAdes – a module for biosynthetic gene cluster
   assembly with paired-end reads

SPAdes provides several stand-alone binaries with relatively simple command-line interface: k-mer counting (spades-kmercounter), assembly graph construction (spades-gbuilder) and long read to graph aligner (spades-gmapper).

Značky: Biológia: Nucleic Acids, Pole: Biológia, field::biology:bioinformatics, implemented-in::c++, Implementované v: Python, User Interface: interface::commandline, role::program, Scope: Utility, Works with: works-with::biological-sequence, works-with::file

Ostatné balíky súvisiace s balíkom spades

závisí

odporúča

navrhuje

vylepšuje

dep: bamtools

toolkit for manipulating BAM (genome alignment) files
dep: bwa

Burrows-Wheeler Aligner
dep: libc6 (>= 2.34)

knižnica GNU C - zdieľané knižnice
tiež virtuálny balík poskytovaný balíkom libc6-udeb
dep: libgcc-s1 (>= 4.0)

podporná knižnica GCC
dep: libgomp1 (>= 6)

podporná knižnica GCC OpenMP (GOMP)
dep: libnlopt0 (>= 2.6.1)

nonlinear optimization library
dep: libssw0 (>= 1.1)

fast SIMD parallelized implementation of the Smith-Waterman algorithm
dep: libstdc++6 (>= 13.1)

štandardná knižnica C++ GNU v3
dep: python3

interactive high-level object-oriented language (default python3 version)
dep: python3-joblib

nástroje na nenáročnú tvorbu rúr v jazyku Python
dep: python3-packaging

základné nástroje balíkov jazyka Python 3
dep: python3-yaml

spracovanie a tvorbu YAML v jazyku Python 3
dep: samtools

processing sequence alignments in SAM, BAM and CRAM formats
dep: zlib1g (>= 1:1.2.3.3)

komprimačná knižnica - dynamická verzia

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Architektúra	Veľkosť balíka	Nainštalovaná veľkosť	Súbory
amd64	8,808.6 kB	38,720.0 kB	[zoznam súborov]