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	1. 688 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. 624 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. 576 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
	4. 470 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
	5. 434 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 \| Full text \| PDF \| PubMed
	6. 406 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 \| Full text \| PDF \| ePUB \| PubMed
	7. 404 Accesses	Methodology EEGgui: a program used to detect electroencephalogram anomalies after traumatic brain injury Justin Sick, Eric Bray, Amade Bregy, W Dietrich, Helen M Bramlett, Thomas Sick Source Code for Biology and Medicine 2013, 8:12 (21 May 2013) Abstract \| Full text \| PDF \| ePUB \| PubMed
	8. 327 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
	9. 317 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
	10. 276 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
	11. 263 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
	12. 253 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 \| Full text \| PDF \| ePUB \| PubMed
	13. 249 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
	14. 225 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
	15. 202 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
	16. 191 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
	17. 183 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
	18. 179 Accesses	Methodology CrypticIBDcheck: an R package for checking cryptic relatedness in nominally unrelated individuals Annick Nembot-Simo, Jinko Graham, Brad McNeney Source Code for Biology and Medicine 2013, 8:5 (6 February 2013) Abstract \| Full text \| PDF \| ePUB \| PubMed
	19. 176 Accesses	Methodology Knowledge Driven Variable Selection (KDVS) – a new approach to enrichment analysis of gene signatures obtained from high–throughput data Grzegorz Zycinski, Annalisa Barla, Margherita Squillario, Tiziana Sanavia, Barbara Di Camillo, Alessandro Verri Source Code for Biology and Medicine 2013, 8:2 (9 January 2013) Abstract \| Full text \| PDF \| ePUB \| PubMed
	20. 174 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.
	21. 166 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
	22. 162 Accesses	Software review Trace2PS and FSA2PS: two software toolkits for converting trace and fsa files to PostScript format Justina Krawczyk, Alexander Goesmann, Ralf Nolte, Martin Werber, Bernd Weisshaar Source Code for Biology and Medicine 2009, 4:4 (21 July 2009) Abstract \| Full text \| PDF \| PubMed
	23. 154 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
	24. 153 Accesses	Software review Bio-samtools: Ruby bindings for SAMtools, a library for accessing BAM files containing high-throughput sequence alignments Ricardo H Ramirez-Gonzalez, Raoul Bonnal, Mario Caccamo, Daniel MacLean Source Code for Biology and Medicine 2012, 7:6 (28 May 2012) Abstract \| Full text \| PDF \| PubMed \| Cited on BioMed Central
	25. 153 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 \| Cited on BioMed Central