<![CDATA[BOL: Latest paper on comparison of mapping tools]]>

<![CDATA[BOL: Latest paper on comparison of mapping tools]]> https://bioinformaticsonline.com/bookmarks/view/4208/latest-paper-on-comparison-of-mapping-tools? https://bioinformaticsonline.com/bookmarks/view/4208/latest-paper-on-comparison-of-mapping-tools Tue, 03 Sep 2013 18:00:38 -0500 https://bioinformaticsonline.com/bookmarks/view/4208/latest-paper-on-comparison-of-mapping-tools <![CDATA[Latest paper on comparison of mapping tools]]> A. Hatem, D. Bozdag, A. E. Toland, U. V. Catalyurek "Benchmarking short sequence mapping tools" BMC Bioinformatics, 14(1):184, 2013.

http://bmi.osu.edu/hpc/software/benchmark/

http://bmi.osu.edu/hpc/software/pmap/pmap.html

Other similiar papers:

http://online.liebertpub.com/doi/pdf/10.1089/cmb.2012.0022

http://bioinformatics.oxfordjournals.org/content/28/24/3169

Some new Mapping tool links:

GSNAP

http://research-pub.gene.com/gmap/

RMAP

http://rulai.cshl.edu/rmap/

mrsFAST

http://mrsfast.sourceforge.net/Home

http://sourceforge.net/projects/mrsfast/files/mrsfast-ultra-3.1.0/

BFAST

http://sourceforge.net/apps/mediawiki/bfast/index.php?title=Main_Page

SHRiMP (for AB SOLiD color-space reads)

http://compbio.cs.toronto.edu/shrimp/

RazerA 3

http://www.seqan.de/projects/razers/

Address of the bookmark: http://www.biomedcentral.com/1471-2105/14/184

]]> Rahul Agarwal https://bioinformaticsonline.com/bookmarks/view/4208/latest-paper-on-comparison-of-mapping-tools#item-annotation-1026 Sat, 30 Nov 2013 19:09:43 -0600 https://bioinformaticsonline.com/bookmarks/view/4208/latest-paper-on-comparison-of-mapping-tools#item-annotation-1026 <![CDATA[Comment by Jit]]> The recent revolution in sequencing technologies has led to an exponential growth of sequence data. To tackle this ‘data deluge’, here Lawrence Berkeley National Laboratory introduce the BioPig sequence analysis toolkit as one of the solutions that scale to data and computation.

BioPig: a Hadoop-based analytic toolkit for large-scale sequence data http://bioinformatics.oxfordjournals.org/content/29/23/3014.short?rss=1

]]> Jit