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	1. 3905 Accesses	Software review SAMMate: a GUI tool for processing short read alignments in SAM/BAM format Guorong Xu, Nan Deng, Zhiyu Zhao, Thair Judeh, Erik Flemington, Dongxiao Zhu Source Code for Biology and Medicine 2011, 6:2 (13 January 2011) Abstract \| Full text \| PDF \| PubMed \| 1 comment
	2. 3191 Accesses	Research Purposeful selection of variables in logistic regression Zoran Bursac, C Heath Gauss, David Keith Williams, David W Hosmer Source Code for Biology and Medicine 2008, 3:17 (16 December 2008) Abstract \| Full text \| PDF \| PubMed
	3. 2740 Accesses	Brief reports KBWS: an EMBOSS associated package for accessing bioinformatics web services Kazuki Oshita, Kazuharu Arakawa, Masaru Tomita Source Code for Biology and Medicine 2011, 6:8 (29 April 2011) Abstract \| Full text \| PDF \| PubMed \| Cited on BioMed Central
	4. 2579 Accesses	Software review Permutation – based statistical tests for multiple hypotheses Anyela Camargo, Francisco Azuaje, Haiying Wang, Huiru Zheng Source Code for Biology and Medicine 2008, 3:15 (21 October 2008) Abstract \| Full text \| PDF \| PubMed
	5. 2299 Accesses	Methodology Boolean network simulations for life scientists István Albert, Juilee Thakar, Song Li, Ranran Zhang, Réka Albert Source Code for Biology and Medicine 2008, 3:16 (14 November 2008) Abstract \| Full text \| PDF \| PubMed
	6. 2207 Accesses	Brief reports Parallel biocomputing Kenneth S Kompass, Thomas J Hoffmann, John S Witte Source Code for Biology and Medicine 2011, 6:4 (18 March 2011) Abstract \| Full text \| PDF \| PubMed
	7. 2182 Accesses	Research Wndchrm – an open source utility for biological image analysis Lior Shamir, Nikita Orlov, D Mark Eckley, Tomasz Macura, Josiah Johnston, Ilya G Goldberg Source Code for Biology and Medicine 2008, 3:13 (8 July 2008) Abstract \| Full text \| PDF \| PubMed
	8. 2158 Accesses	Software review Flow: Statistics, visualization and informatics for flow cytometry Jacob Frelinger, Thomas B Kepler, Cliburn Chan Source Code for Biology and Medicine 2008, 3:10 (17 June 2008) Abstract \| Full text \| PDF \| PubMed
	9. 1927 Accesses	Software review OSPACS: Ultrasound image management system Will Stott, Andy Ryan, Ian J Jacobs, Usha Menon, Conrad Bessant, Christopher Jones Source Code for Biology and Medicine 2008, 3:11 (20 June 2008) Abstract \| Full text \| PDF \| PubMed
	10. 1926 Accesses	Brief reports WordCloud: a Cytoscape plugin to create a visual semantic summary of networks Layla Oesper, Daniele Merico, Ruth Isserlin, Gary D Bader Source Code for Biology and Medicine 2011, 6:7 (7 April 2011) Abstract \| Full text \| PDF \| PubMed \| Cited on BioMed Central
	11. 1917 Accesses	Software review The Multiscale Systems Immunology project: software for cell-based immunological simulation Faheem Mitha, Timothy A Lucas, Feng Feng, Thomas B Kepler, Cliburn Chan Source Code for Biology and Medicine 2008, 3:6 (28 April 2008) Abstract \| Full text \| PDF \| PubMed
	12. 1851 Accesses	Software review Sig2BioPAX: Java tool for converting flat files to BioPAX Level 3 format Ryan L Webb, Avi Ma'ayan Source Code for Biology and Medicine 2011, 6:5 (21 March 2011) Abstract \| Full text \| PDF \| PubMed
	13. 1775 Accesses	Brief reports EntrezAJAX: direct web browser access to the Entrez Programming Utilities Nicholas J Loman, Mark J Pallen Source Code for Biology and Medicine 2010, 5:6 (21 June 2010) Abstract \| Full text \| PDF \| PubMed
	14. 1756 Accesses	Methodology HAMSTER: visualizing microarray experiments as a set of minimum spanning trees Raymond Wan, Larisa Kiseleva, Hajime Harada, Hiroshi Mamitsuka, Paul Horton Source Code for Biology and Medicine 2009, 4:8 (20 November 2009) Abstract \| Full text \| PDF \| PubMed
	15. 1715 Accesses	Software review LSID Tester, a tool for testing Life Science Identifier resolution services Roderic DM Page Source Code for Biology and Medicine 2008, 3:2 (18 February 2008) Abstract \| Full text \| PDF \| PubMed \| Cited on BioMed Central
	16. 1635 Accesses	Brief reports WebGimm: An integrated web-based platform for cluster analysis, functional analysis, and interactive visualization of results Vineet K Joshi, Johannes M Freudenberg, Zhen Hu, Mario Medvedovic Source Code for Biology and Medicine 2011, 6:3 (17 January 2011) Abstract \| Full text \| PDF \| PubMed
	17. 1590 Accesses	Research A traveling salesman approach for predicting protein functions Olin Johnson, Jing Liu Source Code for Biology and Medicine 2006, 1:3 (12 October 2006) Abstract \| Full text \| PDF \| PubMed
	18. 1580 Accesses	Methodology The Shivplot: a graphical display for trend elucidation and exploratory analysis of microarray data Owen Z Woody, Robert Nadon Source Code for Biology and Medicine 2006, 1:6 (8 November 2006) Abstract \| Full text \| PDF \| PubMed
	19. 1559 Accesses	Software review Creating web applications for spatial epidemiological analysis and mapping in R using Rwui Richard Newton, Andrew Deonarine, Lorenz Wernisch Source Code for Biology and Medicine 2011, 6:6 (1 April 2011) Abstract \| Full text \| PDF \| PubMed
	20. 1549 Accesses	Software review LimsPortal and BonsaiLIMS: development of a lab information management system for translational medicine Timothy G Bath, Selcuk Bozdag, Vackar Afzal, Daniel Crowther Source Code for Biology and Medicine 2011, 6:9 (13 May 2011) Abstract \| Full text \| PDF \| PubMed
	21. 1537 Accesses	Research Motmot, an open-source toolkit for realtime video acquisition and analysis Andrew D Straw, Michael H Dickinson Source Code for Biology and Medicine 2009, 4:5 (22 July 2009) Abstract \| Full text \| PDF \| PubMed
	22. 1536 Accesses	Software review ParaHaplo: A program package for haplotype-based whole-genome association study using parallel computing Kazuharu Misawa, Naoyuki Kamatani Source Code for Biology and Medicine 2009, 4:7 (21 October 2009) Abstract \| Full text \| PDF \| PubMed \| Cited on BioMed Central
	23. 1526 Accesses	Software review CONTIGuator: a bacterial genomes finishing tool for structural insights on draft genomes Marco Galardini, Emanuele G Biondi, Marco Bazzicalupo, Alessio Mengoni Source Code for Biology and Medicine 2011, 6:11 (21 June 2011) Abstract \| Full text \| PDF \| PubMed
	24. 1451 Accesses	Software review Open source tool for prediction of genome wide protein-protein interaction network based on ortholog information Chandra Sekhar Pedamallu, Janos Posfai Source Code for Biology and Medicine 2010, 5:8 (4 August 2010) Abstract \| Full text \| PDF \| PubMed \| Cited on BioMed Central
	25. 1448 Accesses	Software review VersaCount: customizable manual tally software for cell counting Charles C Kim, Joseph L DeRisi Source Code for Biology and Medicine 2010, 5:1 (13 January 2010) Abstract \| Full text \| PDF \| PubMed