Evaluation Workshop of the first CAMI Challenge

Created: 2016-05-13 16:39
Institution: Isaac Newton Institute for Mathematical Sciences
Description: Critical Assessment of Metagenome Interpretation (CAMI)

The interpretation of metagenomes relies on sophisticated computational approaches, such as short read assembly, binning and taxonomic classification. All subsequent analyses can only be as meaningful as the outcome of these initial data processing methods. Tremendous progress has been achieved during the last years. However, none of these approaches can completely recover the complex information encoded in metagenomes. Simplifying assumptions are needed and lead to strong limitations and potential inaccuracies in their practical use.

The accuracy of computational methods in metagenomics has so far been evaluated in publications presenting novel or improved methods. However, these snapshots are hardly comparable due to the lack of a general standard for the assessment of computational methods in metagenomics. Users are thus not well informed about general and specific limitations of computational methods. This may result in misinterpretations of computational predictions. Furthermore, method developers need to individually evaluate existing approaches in order to come up with ideas and concepts for improvements and new algorithms. This consumes substantial time and computational resources, and may introduce unintended biases.

We suggest tackling this problem by a new initiative, aiming at the “Critical Assessment of Metagenome Interpretation” (CAMI). It should evaluate methods in metagenomics independently, comprehensively and without bias. The initiative should supply users with exhaustive quantitative data about the performance of methods in all relevant scenarios. It will therefore guide users in the selection and application of methods and in their proper interpretation. Furthermore, it will provide valuable information to developers, allowing them to identify promising directions for their future work. The first CAMI challenge took part in 2015. In the evaluation workshop of the first CAMI challenge at the INI, the challenge results will be analyzed and discussed with participating developer teams. In addition, the focus of future CAMI challenges will be discussed. All talks will be streamed. Interested scientists are encouraged to join.
Website: http://cami-challenge.org
 

Media items

This collection contains 12 media items.

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Media items

A framework for the continuous Assessment of Metagenome Interpretation

   13 views

Belmann, P (Universität Bielefeld)
Wednesday 11th May 2016 - 11:00 to 11:45

Collection: Evaluation Workshop of the first CAMI Challenge

Institution: Isaac Newton Institute for Mathematical Sciences

Created: Fri 13 May 2016


An overview of the assembly results

   24 views

Sczyrba, A (Universität Bielefeld)
Wednesday 11th May 2016 - 11:45 to 12:30

Collection: Evaluation Workshop of the first CAMI Challenge

Institution: Isaac Newton Institute for Mathematical Sciences

Created: Fri 13 May 2016


An overview of the binning results

   25 views

McHardy, A (Helmholtz Centre for Infection Research)
Wednesday 11th May 2016 - 13:30 to 14:15

Collection: Evaluation Workshop of the first CAMI Challenge

Institution: Isaac Newton Institute for Mathematical Sciences

Created: Mon 23 May 2016


An overview of the profiling results

   17 views

Koslicki, D (Oregon State University)
Wednesday 11th May 2016 - 14:15 to 15:00

Collection: Evaluation Workshop of the first CAMI Challenge

Institution: Isaac Newton Institute for Mathematical Sciences

Created: Fri 13 May 2016


CAMI challenge data & simulation pipeline

   28 views

Bremges, A (Helmholtz Centre for Infection Research)
Wednesday 11th May 2016 - 09:45 to 10:30

Collection: Evaluation Workshop of the first CAMI Challenge

Institution: Isaac Newton Institute for Mathematical Sciences

Created: Fri 13 May 2016


Computational Infrastructure to Support CAMI

   6 views

Blood, P (Carnegie Mellon University, University of Pittsburgh)
Thursday 12th May 2016 - 11:20 to 11:35

Collection: Evaluation Workshop of the first CAMI Challenge

Institution: Isaac Newton Institute for Mathematical Sciences

Created: Fri 13 May 2016


Establishing benchmark data sets for further development of unsupervised binning tools

   17 views

Wu, Y (University of California)
Thursday 12th May 2016 - 10:50 to 11:20

Collection: Evaluation Workshop of the first CAMI Challenge

Institution: Isaac Newton Institute for Mathematical Sciences

Created: Wed 18 May 2016


Future focus of CAMI challenges

   7 views

McHardy, A (Helmholtz Centre for Infection Research)
Sczyrba, A (Universität Bielefeld)
Thursday 12th May 2016 - 09:00 to 09:20

Collection: Evaluation Workshop of the first CAMI Challenge

Institution: Isaac Newton Institute for Mathematical Sciences

Created: Fri 13 May 2016


Introduction

   6 views

McHardy, A (Helmholtz Centre for Infection Research )
Wednesday 11th May 2016 - 09:30 to 09:45

Collection: Evaluation Workshop of the first CAMI Challenge

Institution: Isaac Newton Institute for Mathematical Sciences

Created: Fri 13 May 2016


Long-read and hybrid metagenomic assembly: tradeoffs and detections limits

   13 views

Nagarajan, N (Genome Institute of Singapore)
Thursday 12th May 2016 - 09:50 to 10:20

Collection: Evaluation Workshop of the first CAMI Challenge

Institution: Isaac Newton Institute for Mathematical Sciences

Created: Fri 13 May 2016


Resolving genomes from metagenomic strain mixtures with 3C & Hi-C. Is it possible?

   11 views

Darling, A (University of Technology Sydney)
Thursday 12th May 2016 - 09:20 to 09:50

Collection: Evaluation Workshop of the first CAMI Challenge

Institution: Isaac Newton Institute for Mathematical Sciences

Created: Fri 13 May 2016