sga
de novo genome assembler that uses string graphs
Command lineScience
Not tested on a device yet. What that means
Commands in the package
sgasga-alignsga-astatsga-bam2desga-mergeDriver
About sga
From Debian's package description
The major goal of SGA is to be very memory efficient, which is achieved by using a compressed representation of DNA sequence reads.
SGA is a de novo assembler for DNA sequence reads. It is based on Gene Myers' string graph formulation of assembly and uses the FM-index/Burrows-Wheeler transform to efficiently find overlaps between sequence reads.
From Debian's description of the sga package, under that package's license.
Dependencies
Depends on
libbamtools2.5.2libc6libgcc-s1libgomp1libstdc++6zlib1gpython3perlsamtoolspython3-ruffuspython3-pysam
Recommends
Related apps
- bowtieUltrafast memory-efficient short read alignerCommand line
- subreadtoolkit for processing next-gen sequencing dataCommand line
- reliontoolkit for 3D reconstructions in cryo-electron microscopyCommand line
- idbaiterative De Bruijn Graph short read assemblersCommand line
- flyede novo assembler for single molecule sequencing reads using repeat graphsCommand line
- seqan-appsC++ library for the analysis of biological sequencesCommand line
Sources and licenses
- Name: the Debian package name.
- Summary: Debian's short description of the sga package, under that package's license.
- Description: Debian's description of the sga package, under that package's license.
- Versions and sizes: Debian's archive for ARM64, as on packages.debian.org.
- Popularity: Debian Popularity Contest counts.
More in About the catalog.