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	1. 1839 Accesses	Brief reports Git can facilitate greater reproducibility and increased transparency in science Karthik Ram Source Code for Biology and Medicine 2013, 8:7 (28 February 2013) Abstract \| Full text \| PDF \| ePUB \| PubMed
	2. 865 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 \| Cited on BioMed Central
	3. 676 Accesses	Commentary How Not to Be a Bioinformatician Manuel Corpas, Segun Fatumo, Reinhard Schneider Source Code for Biology and Medicine 2012, 7:3 (28 May 2012) Abstract \| Full text \| PDF \| PubMed \| 1 comment
	4. 634 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
	5. 432 Accesses	Research BioPatRec: A modular research platform for the control of artificial limbs based on pattern recognition algorithms Max Ortiz-Catalan, Rickard Brånemark, Bo Håkansson Source Code for Biology and Medicine 2013, 8:11 (18 April 2013) Abstract \| Provisional PDF \| PubMed
	6. 418 Accesses	Methodology The non-negative matrix factorization toolbox for biological data mining Yifeng Li, Alioune Ngom Source Code for Biology and Medicine 2013, 8:10 (16 April 2013) Abstract \| Provisional PDF \| PubMed
	7. 404 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
	8. 346 Accesses	Software review Automatic Fortran to C++ conversion with FABLE Ralf W Grosse-Kunstleve, Thomas C Terwilliger, Nicholas K Sauter, Paul D Adams Source Code for Biology and Medicine 2012, 7:5 (28 May 2012) Abstract \| Full text \| PDF \| PubMed
	9. 313 Accesses	Software review SVAw - a web-based application tool for automated surrogate variable analysis of gene expression studies Mehdi Pirooznia, Fayaz Seifuddin, Fernando S Goes, Jeffrey T Leek, Peter P Zandi Source Code for Biology and Medicine 2013, 8:8 (11 March 2013) Abstract \| Full text \| PDF \| ePUB \| PubMed
	10. 285 Accesses	Software review Layout-aware text extraction from full-text PDF of scientific articles Cartic Ramakrishnan, Abhishek Patnia, Eduard Hovy, Gully APC Burns Source Code for Biology and Medicine 2012, 7:7 (28 May 2012) Abstract \| Full text \| PDF \| PubMed
	11. 275 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
	12. 256 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
	13. 203 Accesses	Research Yabi: An online research environment for grid, high performance and cloud computing Adam A Hunter, Andrew B Macgregor, Tamas O Szabo, Crispin A Wellington, Matthew I Bellgard Source Code for Biology and Medicine 2012, 7:1 (15 February 2012) Abstract \| Full text \| PDF \| PubMed \| Editor’s summary Yabi, a new online research environment, provides transparent access to existing High Performance Computing (HPC) resources and complements current workflow environments by providing a rich and intuitive webbased user interface.
	14. 200 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
	15. 193 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 \| Cited on BioMed Central
	16. 188 Accesses	Brief reports RECOT: a tool for the coordinate transformation of next-generation sequencing reads for comparative genomics and transcriptomics Akiko Izawa, Jun Sese Source Code for Biology and Medicine 2013, 8:6 (26 February 2013) Abstract \| Full text \| PDF \| PubMed
	17. 178 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 \| Cited on BioMed Central
	18. 178 Accesses	Editorial Changing computational research. The challenges ahead Cameron Neylon, Jan Aerts, C Brown, Simon J Coles, Les Hatton, Daniel Lemire, K Millman, Peter Murray-Rust, Fernando Perez, Neil Saunders, Nigam Shah, Arfon Smith, Gaël Varoquaux, Egon Willighagen Source Code for Biology and Medicine 2012, 7:2 (28 May 2012) Abstract \| Full text \| PDF \| PubMed
	19. 167 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
	20. 160 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
	21. 157 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
	22. 155 Accesses	Software review Inmembrane, a bioinformatic workflow for annotation of bacterial cell-surface proteomes Andrew J Perry, Bosco K Ho Source Code for Biology and Medicine 2013, 8:9 (19 March 2013) Abstract \| Provisional PDF \| PubMed
	23. 149 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. 147 Accesses	Software review FCC – An automated rule-based processing tool for life science data Simon Barkow-Oesterreicher, Can Türker, Christian Panse Source Code for Biology and Medicine 2013, 8:3 (11 January 2013) Abstract \| Full text \| PDF \| ePUB \| PubMed
	25. 140 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