Display Settings:

Format
Items per page
Sort by

Send to:

Choose Destination

Results: 1 to 20 of 74

1.

Genome assembly forensics: finding the elusive mis-assembly.

Phillippy AM, Schatz MC, Pop M.

Genome Biol. 2008;9(3):R55. doi: 10.1186/gb-2008-9-3-r55. Epub 2008 Mar 14.

PMID:
18341692
[PubMed - indexed for MEDLINE]
Free PMC Article
2.

Assembly reconciliation.

Zimin AV, Smith DR, Sutton G, Yorke JA.

Bioinformatics. 2008 Jan 1;24(1):42-5. Epub 2007 Dec 5.

PMID:
18057021
[PubMed - indexed for MEDLINE]
Free Article
3.

Hawkeye: an interactive visual analytics tool for genome assemblies.

Schatz MC, Phillippy AM, Shneiderman B, Salzberg SL.

Genome Biol. 2007;8(3):R34.

PMID:
17349036
[PubMed - indexed for MEDLINE]
Free PMC Article
4.

An algorithm for automated closure during assembly.

Koren S, Miller JR, Walenz BP, Sutton G.

BMC Bioinformatics. 2010 Sep 10;11:457. doi: 10.1186/1471-2105-11-457.

PMID:
20831800
[PubMed - indexed for MEDLINE]
Free PMC Article
5.

Mind the gap: upgrading genomes with Pacific Biosciences RS long-read sequencing technology.

English AC, Richards S, Han Y, Wang M, Vee V, Qu J, Qin X, Muzny DM, Reid JG, Worley KC, Gibbs RA.

PLoS One. 2012;7(11):e47768. doi: 10.1371/journal.pone.0047768. Epub 2012 Nov 21.

PMID:
23185243
[PubMed - indexed for MEDLINE]
Free PMC Article
6.

Hawkeye and AMOS: visualizing and assessing the quality of genome assemblies.

Schatz MC, Phillippy AM, Sommer DD, Delcher AL, Puiu D, Narzisi G, Salzberg SL, Pop M.

Brief Bioinform. 2013 Mar;14(2):213-24. doi: 10.1093/bib/bbr074. Epub 2011 Dec 23.

PMID:
22199379
[PubMed - indexed for MEDLINE]
Free PMC Article
7.

NcDNAlign: plausible multiple alignments of non-protein-coding genomic sequences.

Rose D, Hertel J, Reiche K, Stadler PF, Hackerm├╝ller J.

Genomics. 2008 Jul;92(1):65-74. doi: 10.1016/j.ygeno.2008.04.003. Epub 2008 Jun 3.

PMID:
18511233
[PubMed - indexed for MEDLINE]
Free Article
8.

Hierarchical scaffolding with Bambus.

Pop M, Kosack DS, Salzberg SL.

Genome Res. 2004 Jan;14(1):149-59.

PMID:
14707177
[PubMed - indexed for MEDLINE]
Free PMC Article
9.

A machine-learning approach to combined evidence validation of genome assemblies.

Choi JH, Kim S, Tang H, Andrews J, Gilbert DG, Colbourne JK.

Bioinformatics. 2008 Mar 15;24(6):744-50. doi: 10.1093/bioinformatics/btm608. Epub 2008 Jan 18.

PMID:
18204064
[PubMed - indexed for MEDLINE]
Free Article
10.

Figaro: a novel statistical method for vector sequence removal.

White JR, Roberts M, Yorke JA, Pop M.

Bioinformatics. 2008 Feb 15;24(4):462-7. doi: 10.1093/bioinformatics/btm632. Epub 2008 Jan 17.

PMID:
18202027
[PubMed - indexed for MEDLINE]
Free PMC Article
11.

Correcting base-assignment errors in repeat regions of shotgun assembly.

Zhi D, Keich U, Pevzner P, Heber S, Tang H.

IEEE/ACM Trans Comput Biol Bioinform. 2007 Jan-Mar;4(1):54-64.

PMID:
17277413
[PubMed - indexed for MEDLINE]
12.

ChromaPipe: a pipeline for analysis, quality control and management for a DNA sequencing facility.

Otto TD, Vasconcellos EA, Gomes LH, Moreira AS, Degrave WM, Mendon├ža-Lima L, Alves-Ferreira M.

Genet Mol Res. 2008 Sep 23;7(3):861-71.

PMID:
18949705
[PubMed - indexed for MEDLINE]
Free Article
13.

A preprocessor for shotgun assembly of large genomes.

Roberts M, Hunt BR, Yorke JA, Bolanos RA, Delcher AL.

J Comput Biol. 2004;11(4):734-52.

PMID:
15579242
[PubMed - indexed for MEDLINE]
14.

Draft versus finished sequence data for DNA and protein diagnostic signature development.

Gardner SN, Lam MW, Smith JR, Torres CL, Slezak TR.

Nucleic Acids Res. 2005 Oct 20;33(18):5838-50. Print 2005.

PMID:
16243783
[PubMed - indexed for MEDLINE]
Free PMC Article
15.

TROLL--tandem repeat occurrence locator.

Castelo AT, Martins W, Gao GR.

Bioinformatics. 2002 Apr;18(4):634-6.

PMID:
12016062
[PubMed - indexed for MEDLINE]
Free Article
16.

Automated ensemble assembly and validation of microbial genomes.

Koren S, Treangen TJ, Hill CM, Pop M, Phillippy AM.

BMC Bioinformatics. 2014 May 3;15:126. doi: 10.1186/1471-2105-15-126.

PMID:
24884846
[PubMed - indexed for MEDLINE]
Free PMC Article
17.

An integrated pipeline for de novo assembly of microbial genomes.

Tritt A, Eisen JA, Facciotti MT, Darling AE.

PLoS One. 2012;7(9):e42304. doi: 10.1371/journal.pone.0042304. Epub 2012 Sep 13.

PMID:
23028432
[PubMed - indexed for MEDLINE]
Free PMC Article
18.

TRAP: Tandem Repeat Assembly Program produces improved shotgun assemblies of repetitive sequences.

Tammi MT, Arner E, Andersson B.

Comput Methods Programs Biomed. 2003 Jan;70(1):47-59.

PMID:
12468126
[PubMed - indexed for MEDLINE]
19.

ABySS: a parallel assembler for short read sequence data.

Simpson JT, Wong K, Jackman SD, Schein JE, Jones SJ, Birol I.

Genome Res. 2009 Jun;19(6):1117-23. doi: 10.1101/gr.089532.108. Epub 2009 Feb 27.

PMID:
19251739
[PubMed - indexed for MEDLINE]
Free PMC Article
20.

XplorSeq: a software environment for integrated management and phylogenetic analysis of metagenomic sequence data.

Frank DN.

BMC Bioinformatics. 2008 Oct 7;9:420. doi: 10.1186/1471-2105-9-420.

PMID:
18840282
[PubMed - indexed for MEDLINE]
Free PMC Article

Display Settings:

Format
Items per page
Sort by

Send to:

Choose Destination

Supplemental Content

Write to the Help Desk