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	1. 427 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
	2. 300 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
	3. 276 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
	4. 213 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
	5. 212 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
	6. 199 Accesses	Software review SNIT: SNP identification for strain typing Ravi Vijaya Satya, Nela Zavaljevski, Jaques Reifman Source Code for Biology and Medicine 2011, 6:14 (8 September 2011) Abstract \| Full text \| PDF \| PubMed
	7. 180 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
	8. 163 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
	9. 158 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
	10. 156 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
	11. 155 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
	12. 154 Accesses	Methodology A methodology for projecting hospital bed need: a Michigan case study Shaun A Langley, Steven P Fuller, Joseph P Messina, Ashton M Shortridge, Sue C Grady Source Code for Biology and Medicine 2010, 5:4 (25 March 2010) Abstract \| Full text \| PDF \| PubMed
	13. 153 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. 136 Accesses	Research Bioinformatics process management: information flow via a computational journal Lance Feagan, Justin Rohrer, Alexander Garrett, Heather Amthauer, Ed Komp, David Johnson, Adam Hock, Terry Clark, Gerald Lushington, Gary Minden, Victor Frost Source Code for Biology and Medicine 2007, 2:9 (3 December 2007) Abstract \| Full text \| PDF \| PubMed
	15. 135 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
	16. 132 Accesses	Software review Genes2WordCloud: a quick way to identify biological themes from gene lists and free text Caroline Baroukh, Sherry Jenkins, Ruth Dannenfelser, Avi Ma'ayan Source Code for Biology and Medicine 2011, 6:15 (13 October 2011) Abstract \| Full text \| PDF \| PubMed
	17. 122 Accesses	Software review A software pipeline for processing and identification of fungal ITS sequences R Henrik Nilsson, Gunilla Bok, Martin Ryberg, Erik Kristiansson, Nils Hallenberg Source Code for Biology and Medicine 2009, 4:1 (15 January 2009) Abstract \| Full text \| PDF \| PubMed
	18. 116 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
	19. 112 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
	20. 106 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
	21. 103 Accesses	Methodology KinImmerse: Macromolecular VR for NMR ensembles Jeremy N Block, David J Zielinski, Vincent B Chen, Ian W Davis, E Claire Vinson, Rachael Brady, Jane S Richardson, David C Richardson Source Code for Biology and Medicine 2009, 4:3 (17 February 2009) Abstract \| Full text \| PDF \| PubMed
	22. 100 Accesses	Software review Nephele: genotyping via complete composition vectors and MapReduce Marc E Colosimo, Matthew W Peterson, Scott Mardis, Lynette Hirschman Source Code for Biology and Medicine 2011, 6:13 (18 August 2011) Abstract \| Full text \| PDF \| PubMed
	23. 100 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
	24. 99 Accesses	Software review Tools for efficient epistasis detection in genome-wide association study Xiang Zhang, Shunping Huang, Fei Zou, Wei Wang Source Code for Biology and Medicine 2011, 6:1 (4 January 2011) Abstract \| Full text \| PDF \| PubMed \| Cited on BioMed Central
	25. 99 Accesses	Software review A proof of the DBRF-MEGN method, an algorithm for deducing minimum equivalent gene networks Koji Kyoda, Kotaro Baba, Hiroaki Kitano, Shuichi Onami Source Code for Biology and Medicine 2011, 6:12 (24 June 2011) Abstract \| Full text \| PDF \| PubMed