- recipe spades
SPAdes (St. Petersburg genome assembler) is intended for both standard isolates and single-cell MDA bacteria assemblies.
- Homepage:
- Documentation:
- Developer docs:
- License:
GPL / GPLv2
- Recipe:
- Links:
biotools: spades, usegalaxy-eu: spades, doi: 10.1089/cmb.2012.0021, doi: 10.1101/gr.213959.116, doi: 10.1093/gigascience/giz100, doi: 10.1093/bioinformatics/btz349
SPAdes (St. Petersburg genome assembler) is a genome assembly algorithm which was designed for single cell and multi-cells bacterial data sets. However, it might not be suitable for large genomes projects.
SPAdes works with Ion Torrent, PacBio, Oxford Nanopore, and Illumina paired-end, mate-pairs and single reads
- package spades¶
-
- Versions:
3.15.5-1
,3.15.5-0
,3.15.4-0
,3.15.3-1
,3.15.3-0
,3.15.2-1
,3.15.2-0
,3.15.0-0
,3.14.1-2
,3.15.5-1
,3.15.5-0
,3.15.4-0
,3.15.3-1
,3.15.3-0
,3.15.2-1
,3.15.2-0
,3.15.0-0
,3.14.1-2
,3.14.1-1
,3.14.1-0
,3.14.0-0
,3.13.2-0
,3.13.1-2
,3.13.1-1
,3.13.1-0
,3.13.0-0
,3.12.0-3
,3.12.0-2
,3.12.0-1
,3.12.0-0
,3.11.1-5
,3.11.1-4
,3.11.1-3
,3.11.1-2
,3.11.1-1
,3.11.1-0
,3.11.0-1
,3.11.0-0
,3.10.1-1
,3.10.1-0
,3.10.0-0
,3.9.1-1
,3.9.1-0
,3.9.0-4
,3.9.0-3
,3.9.0-2
,3.9.0-1
,3.9.0-0
,3.8.1-0
,3.8.0-0
,3.7.0-0
,3.6.2-0
,3.5.0-1
,3.5.0-0
- Depends:
bzip2
>=1.0.8,<2.0a0
libgcc-ng
>=12
libstdcxx-ng
>=12
libzlib
>=1.2.12,<1.3.0a0
sysroot_linux-64
2.17.*
- Required By:
Installation
With an activated Bioconda channel (see set-up-channels), install with:
conda install spades
and update with:
conda update spades
or use the docker container:
docker pull quay.io/biocontainers/spades:<tag>
(see spades/tags for valid values for
<tag>
)
Download stats¶
Link to this page¶
Render an badge with the following MarkDown:
[](http://bioconda.github.io/recipes/spades/README.html)