<![CDATA[BOL: SGA: String Graph Assembler]]> https://bioinformaticsonline.com/bookmarks/view/30076/sga-string-graph-assembler? https://bioinformaticsonline.com/bookmarks/view/30076/sga-string-graph-assembler Thu, 08 Dec 2016 05:08:59 -0600 https://bioinformaticsonline.com/bookmarks/view/30076/sga-string-graph-assembler <![CDATA[SGA: String Graph Assembler]]> SGA is a de novo genome assembler based on the concept of string graphs. The major goal of SGA is to be very memory efficient, which is achieved by using a compressed representation of DNA sequence reads.

More at

https://github.com/jts/sga

SGA dependencies:
-google sparse hash library (http://code.google.com/p/google-sparsehash/)
-the bamtools library (https://github.com/pezmaster31/bamtools)
-zlib (http://www.zlib.net/)
-(optional but suggested) the jemalloc memory allocator (http://www.canonware.com/jemalloc/download.html)

Address of the bookmark: https://github.com/jts/sga

]]> Jit https://bioinformaticsonline.com/bookmarks/view/30076/sga-string-graph-assembler#item-annotation-2705 Thu, 08 Dec 2016 05:58:56 -0600 https://bioinformaticsonline.com/bookmarks/view/30076/sga-string-graph-assembler#item-annotation-2705 <![CDATA[Comment by Bulbul]]> Try this  hierarchical genome assembly (HGA) assembler https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4779561/

]]> Bulbul