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	Minimus: a fast, lightweight genome assembler [My Copy] BMC Bioinformatics, Vol. 8, No. 1. (26 February 2007), 64. by Daniel Sommer, Arthur Delcher, Steven Salzberg, Mihai Pop posted to tool software minimus genome bacterial assembly assembler by n00c on 2009-12-17 18:58:03 as along with 6 people michaelbarton druvus azazello Neeperando Thaverkamp eckart_bindewald
	Fragment assembly with double-barreled data [My Copy] Bioinformatics, Vol. 17, No. suppl_1. (1 June 2001), pp. S225-233. by Pavel A. Pevzner, Haixu Tang posted to tool software euler de-bruijn assembly assembler by n00c on 2009-12-14 22:13:15 as along with 1 person dakelley
	Fragment assembly with short reads. [My Copy] Bioinformatics (Oxford, England) In Bioinformatics, Vol. 20, No. 13. (1 September 2004), pp. 2067-2074. by Mark Chaisson, Pavel Pevzner, Haixu Tang posted to next-generation-sequencing-application assembler by darian on 2009-12-07 14:28:22 as along with 6 people n00c idoerg dakelley orzenil bioinfo nedwards
	A case study in genome-level fragment assembly [My Copy] Bioinformatics (Oxford, England) In Bioinformatics, Vol. 16, No. 6. (1 June 2000), pp. 494-500. by Ting Chen, Steven S. Skiena posted to software review genome comparison assembly assembler by n00c on 2009-12-03 14:02:57 as along with 2 people jbhiatt neveaire
	Whole-genome sequence assembly for mammalian genomes: Arachne 2. [My Copy] Genome research In Genome Research, Vol. 13, No. 1. (1 January 2003), pp. 91-96. by David B. Jaffe, Jonathan Butler, Sante Gnerre, et al.Evan Mauceli, Kerstin Lindblad-Toh, Jill P. Mesirov, Michael C. Zody, Eric S. Lander posted to tool software genome assembly assembler arachne2 arachne 454 by n00c on 2009-12-03 14:01:01 as along with 10 people and 1 group claire_jubin darian jmanning2k orzenil idoerg bpb indigoviolet AaronDarling wenhan farhat EisenLab
	Consensus generation and variant detection by Celera Assembler [My Copy] Bioinformatics In Bioinformatics, Vol. 24, No. 8. (15 April 2008), pp. 1035-1040. by Gennady Denisov, Brian Walenz, Aaron L. Halpern, et al.Jason Miller, Nelson Axelrod, Samuel Levy, Granger Sutton posted to variant-calling variant consensus celera assembly assembler by n00c on 2009-12-03 13:28:31 as along with 7 people darian dakelley orzenil natstreet druvus nmohelli semrich
	The phusion assembler. [My Copy] Genome research, Vol. 13, No. 1. (1 January 2003), pp. 81-90. by James C. Mullikin, Zemin Ning posted to sequencing phusion genome assembly assembler by n00c on 2009-12-03 00:46:32 as along with 7 people icq242500260 natstreet druvus bpb wenhan dmc azazello
	Extending assembly of short DNA sequences to handle error [My Copy] Bioinformatics, Vol. 23, No. 21. (1 November 2007), pp. 2942-2944. by William R. Jeck, Josephine A. Reinhardt, David A. Baltrus, et al.Matthew T. Hickenbotham, Vincent Magrini, Elaine R. Mardis, Jeffery L. Dangl, Corbin D. Jones posted to vcake tool ssake software short-read assembler by n00c on 2009-12-02 17:51:00 as along with 7 people idoerg floatingpoint natstreet druvus guhjy azazello Neeperando
	Assembling millions of short DNA sequences using SSAKE [My Copy] Bioinformatics, Vol. 23, No. 4. (15 February 2007), pp. 500-501. by Rene L. Warren, Granger G. Sutton, Steven J. M. Jones, Robert A. Holt posted to tool ssake software short-read assembler by n00c on 2009-12-02 17:49:35 as along with 14 people katholt jbhiatt jsatkosk AaronDarling floatingpoint idoerg caseybrown druvus natstreet azazello iris42 nmohelli Neeperando yoonk
	ABySS: a parallel assembler for short read sequence data. [My Copy] Genome research, Vol. 19, No. 6. (1 June 2009), pp. 1117-1123. by Jared T. Simpson, Kim Wong, Shaun D. Jackman, Jacqueline E. Schein, Steven J. Jones, Inanç Birol posted to ngs assembler by cthachuk on 2009-11-17 22:13:12 as along with 27 people and 2 groups darian jfr hzoltan ramonvidal orzenil pachorip GustavoLacerda jonilaserson operon polivares reyez jasontsai n00c humburg dakelley jessopher idonaldson robsyme neils natstreet AaronDarling druvus rpatward dswan stajich jbhiatt erikarner BergmanLab Mycology
	A report on the 2009 SIG on short read sequencing and algorithms (Short-SIG) [My Copy] Bioinformatics, Vol. 25, No. 21. (1 November 2009), pp. 2863-2864. by Michael Brudno, Paul Medvedev, Jens Stoye, Francisco M. De La Vega posted to sequencing meeting brudno assembly assembler by seb1 on 2009-10-23 16:56:54 as along with 3 people idonaldson n00c druvus
	RePS: a sequence assembler that masks exact repeats identified from the shotgun data. [My Copy] Genome research, Vol. 12, No. 5. (1 May 2002), pp. 824-831. by Jun Wang, Gane Ka-Shu K. Wong, Peixiang Ni, et al.Yujun Han, Xiangang Huang, Jianguo Zhang, Chen Ye, Yong Zhang, Jianfei Hu, Kunlin Zhang, Xin Xu, Lijuan Cong, Hong Lu, Xide Ren, Xiaoyu Ren, Jun He, Lin Tao, Douglas A. Passey, Jian Wang, Huanming Yang, Jun Yu, Songgang Li posted to phrap assembly assembler by seb1 on 2009-10-23 16:31:42 as along with 3 people natstreet n00c orzenil
	Using the miraEST assembler for reliable and automated mRNA transcript assembly and SNP detection in sequenced ESTs. [My Copy] Genome research, Vol. 14, No. 6. (June 2004), pp. 1147-1159. by Bastien Chevreux, Thomas Pfisterer, Bernd Drescher, et al.Albert J. Driesel, Werner E. Müller, Thomas Wetter, Sándor Suhai posted to sequence rotation_1 genome de_novo assembler alignments alignment by rneches on 2009-10-16 01:45:45 as along with 3 people mpizbioinfo druvus Ayest
	ALLPATHS 2: small genomes assembled accurately and with high continuity from short paired reads [My Copy] Genome Biology, Vol. 10, No. 10. (1 October 2009), R103. by Iain MacCallum, Dariusz Przybylski, Sante Gnerre, et al.Joshua Burton, Ilya Shlyakhter, Andreas Gnirke, Joel Malek, Kevin McKernan, Swati Ranade, Terrance Shea, Louise Williams, Sarah Young, Chad Nusbaum, David Jaffe posted to solexa assembly assembler by ramonvidal on 2009-10-06 16:46:38 as along with 10 people and 1 group djkt n00c azazello dakelley jgill GustavoLacerda justinhjohnson stajich druvus neils Mycology
	An Eulerian path approach to DNA fragment assembly [My Copy] Proceedings of the National Academy of Sciences of the United States of America, Vol. 98, No. 17. (14 August 2001), pp. 9748-9753. by Pavel A. Pevzner, Haixu Tang, Michael S. Waterman posted to tool software eulerian euler dna assembly assembler algorithm by n00c on 2009-10-01 16:16:53 as along with 16 people and 2 groups skennedy8 darian aheilbut jengeldk robsyme Neeperando idoerg dakelley brl A_Olympia briann jmeppley AaronDarling nedwards azazello jwhitney Philosophy_of_Information Blog_and_Wiki_Research
	Gene-Boosted Assembly of a Novel Bacterial Genome from Very Short Reads [My Copy] PLoS Comput Biol In PLoS Comput Biol, Vol. 4, No. 9. (26 September 2008), e1000186. by Steven L. Salzberg, Daniel D. Sommer, Daniela Puiu, Vincent T. Lee posted to short-read genome bacterial assembly assembler by n00c on 2009-09-28 15:27:39 as along with 17 people and 5 groups skembel operon michaelbarton azazello Thaverkamp dakelley sconlan GustavoLacerda treangen natstreet antonkratz druvus vaulot djkt Katje stajich semrich BergmanLab Papers recommended by the Roscoff Plankton Group iSEEM microbiology_nijmegen Mycology
	De novo fragment assembly with short mate-paired reads: Does the read length matter? [My Copy] Genome research, Vol. 19, No. 2. (3 February 2009), pp. 336-346. by Mark J. Chaisson, Dumitru Brinza, Pavel A. Pevzner posted to solexa short-read paired-end illumina euler-usr euler error-rate error-model de-novo assembly assembler by n00c on 2009-09-28 15:25:38 as along with 19 people and 1 group claire_jubin darian carlk APRegier jandot jonilaserson natstreet dakelley jessopher orzenil AaronDarling sphsmith jasontsai nmohelli jbhiatt druvus hpaces GustavoLacerda stajich Mycology
	Short read fragment assembly of bacterial genomes [My Copy] Genome Research, Vol. 18, No. 2. (1 February 2008), pp. 324-330. by Mark J. Chaisson, Pavel A. Pevzner posted to tool solexa software short-read newbler illumina genome eulerian euler-sr comparison assembly assembler 454 by n00c on 2009-09-28 15:23:30 as along with 17 people pachorip APRegier thegoose2 dakelley Neeperando hpaces idoerg druvus jasontsai acn orzenil azazello GustavoLacerda dandaman caseybrown iris42 tharris
	De novo genome sequence assembly of a filamentous fungus using Sanger, 454 and Illumina sequence data [My Copy] Genome Biology, Vol. 10, No. 9. (2009), R94. by Scott DiGuistini, Nancy Liao, Darren Platt, et al.Gordon Robertson, Michael Seidel, Simon Chan, T. Roderick Docking, Inanc Birol, Robert Holt, Martin Hirst, Elaine Mardis, Marco Marra, Richard Hamelin, Jorg Bohlmann, Colette Breuil, Steven Jones posted to solexa sequencing illumina denovo assembler 454 by sujaikumar on 2009-09-14 10:07:52 as along with 12 people and 2 groups darian n00c orzenil GustavoLacerda sotacam gillianturgeon natstreet druvus jamselem kiekyon ppgardne stajich Journal picks Mycology
	Assisted assembly: how to improve a de novo genome assembly by using related species [My Copy] Genome Biology, Vol. 10, No. 8. (2009), R88. by Sante Gnerre, Eric Lander, Kerstin L. Toh, David Jaffe posted to genome assembler by danmaclean on 2009-09-01 11:34:36 as along with 20 people and 2 groups n00c davidmam klo operon fstrozzi kiekyon torfinnnome dakelley jamselem err129 djkt darian APRegier thegoose stajich natstreet neils druvus GustavoLacerda avilella Mycology Journal picks
	Rapid transcriptome characterization for a nonmodel organism using 454 pyrosequencing [My Copy] Molecular Ecology, Vol. 17, No. 7. (April 2008), pp. 1636-1647. by J. Cristobal Vera, Christopher W. Wheat, Howard W. Fescemyer, et al.Mikko J. Frilander, Douglas L. Crawford, I. Ilkka Hansk, James H. Marden posted to 454 assembler genome sequencing by sujaikumar on 2009-07-22 16:48:32 as along with 5 people n00c oneilsh semrich orzenil guhjy
	Crystallizing short-read assemblies around seeds. [My Copy] BMC bioinformatics, Vol. 10 Suppl 1 (2009) by M. S. Hossain, N. Azimi, S. Skiena posted to assembler de-novo seed short-read shorty software by n00c on 2009-06-03 19:46:07 as along with 2 people natstreet druvus
	QSRA: a quality-value guided de novo short read assembler. [My Copy] BMC bioinformatics, Vol. 10, No. 1. (2009) by Douglas W. Bryant, Weng-Keen K. Wong, Todd C. Mockler posted to assembler de-novo qsra short-read software by n00c on 2009-06-03 19:44:57 as along with 11 people and 2 groups michaelbarton hzoltan GustavoLacerda GeeSharpMinor jfr dakelley pengchy natstreet stajich idoerg druvus Bioinformatics Mycology
	Fast and accurate short read alignment with Burrows-Wheeler transform. [My Copy] Bioinformatics (Oxford, England), Vol. 25, No. 14. (15 July 2009), pp. 1754-1760. by Heng Li, Richard Durbin posted to assembler read short by danmaclean to the group Bioinformatics on 2009-05-28 11:44:18 as along with 35 people and 3 groups urgi agbiotec lianping hzoltan cthachuk maren bozdagd adijr heliopais jmanning2k GustavoLacerda stubrown jessopher guhjy katholt mkiyer jmcq idonaldson michaelbarton polivares darian orzenil cassj inesdesantiago TRHvidsten djkt operon ghattem n00c ppgardne nuin rschulz natstreet druvus humburg BergmanLab SIMR bioinformatics Journal picks
	ALLPATHS: De novo assembly of whole-genome shotgun microreads [My Copy] Genome Research, Vol. 18, No. 5. (13 May 2008), pp. 810-820. by Jonathan Butler, Iain MacCallum, Michael Kleber, et al.Ilya A. Shlyakhter, Matthew K. Belmonte, Eric S. Lander, Chad Nusbaum, David B. Jaffe posted to assembler short-reads by mhz on 2009-03-11 17:27:50 as along with 23 people and 1 group ajsferreira n00c carlk jmanning2k APRegier pachorip jonilaserson operon thegoose2 natstreet AaronDarling dakelley druvus stajich azazello hpaces tharris jwhitney iris42 Neeperando sharpton GustavoLacerda GeeSharpMinor Mycology
	Velvet: algorithms for de novo short read assembly using de Bruijn graphs. [My Copy] Genome research In Genome Research, Vol. 18, No. 5. (18 May 2008), pp. 821-829. by Daniel R. Zerbino, Ewan Birney posted to assembler short-reads by mhz on 2009-03-11 17:23:18 as along with 45 people and 3 groups claire_jubin danbolser humburg ajsferreira vplagnol bedo jwhitney cthachuk hzoltan azazello ajbattle jmanning2k n00c carlk pachorip APRegier jbhiatt jonilaserson operon jahwa jsatkosk sandfire thegoose2 katholt robsyme djkt hpaces AaronDarling idoerg jmcq dswan dakelley jasontsai acn druvus natstreet nmohelli stajich farhat iris42 tharris Neeperando sharpton GustavoLacerda gdb Bioinformatics DeNovoAssembly-SIMR Mycology
	Assembler Referenz [My Copy] by Oliver Müller posted to assembler programming by harald to the group Catalysts Bookshelf on 2008-07-14 20:15:19 as
	Pigs from sausages? Reengineering from assembler to C via FermaT transformations [My Copy] Science of Computer Programming, Vol. 52, No. 1-3. (August 2004), pp. 213-255. by M. Ward posted to assembler c fermat programtransformation softwarereengineering by hamish on 2005-06-23 22:26:37 as

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genome	9
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tool	8
454	4
de-novo	4
sequencing	4
solexa	4
euler	3
illumina	3
short-reads	3
abyss	2
bacterial	2
comparison	2
eulerian	2
ngs	2
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algorithm	1
alignment	1
alignments	1
arachne	1
arachne2	1
base_pairs	1
brudno	1
c	1
celera	1
consensus	1
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de_novo	1
denovo	1
dna	1
dna_sequencing	1
error-model	1
error-rate	1
euler-sr	1
euler-usr	1
fermat	1
genetic_variation	1
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mask	1
meeting	1
minimus	1
newbler	1
next-generation-sequencing-application	1
paired-end	1
phrap	1
phusion	1
programming	1
programtransformation	1
qsra	1
repeats	1
reps	1
review	1
rotation_1	1
seed	1
sequence	1
shorty	1
softwarereengineering	1
tandem-repeats	1
variant	1
variant-calling	1
vcake	1

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