Search PubMedSearch

PubMed · 9950737

A parallel noise-robust algorithm to recover depth information from radial flow fields.

Abstract

A parallel algorithm operating on the units ('neurons') of an artificial retina is proposed to recover depth information in a visual scene from radial flow fields induced by ego motion along a given axis. The system consists of up to 600 radii with fewer than 65 radially arranged neurons on each radius. Neurons are connected only to their nearest neighbors, and they are excited as soon as a sufficiently strong gray-level change occurs. The time difference of two subsequently activated neurons is then used by the last-excited neuron to compute the depth information. All algorithmic calculations remain strictly local, and information is exchanged only between adjacent active neurons (except for the final read-out). This, in principle, permits parallel implementation. Furthermore, it is demonstrated that the calculation of the object coordinates requires only a single multiplication with a constant, which is dependent on only the retinal position of the active neuron. The initial restriction to local operations makes the algorithm very noise sensitive. In order to solve this problem, a predication mechanism is introduced. After an object coordinate has been determined, the active neuron computes the time when the next neuronal excitation should take place. This estimated time is transferred to the respective next neuron, which will wait for this excitation only within a certain time window. If the excitation fails to arrive within this window, the previously computed object coordinate is regarded as noisy and discarded. We will show that this predictive mechanism relies also on only a (second) single multiplication with another neuron-dependent constant. Thus, computational complexity remains low, and noisy depth coordinates are efficiently eliminated. Thus, the algorithm is very fast and operates in real time on 128 x 128 images even in a serial implementation on a relatively slow computer. The algorithm is tested on scenes of growing complexity, and a detailed error analysis is provided showing that the depth error remains very low in most cases. A comparison to standard flow-field analysis shows that our algorithm outperforms the older method by far. The analysis of the algorithm also shows that it is generally applicable despite its restrictions, because it is fast and accurate enough such that a complete depth percept can be composed from radial flow field segments. Finally, we suggest how to generalize the algorithm, waiving the restriction of radial flow.

Explore related subjects

Keep this discovery

Explore connections, maps & timelines

BibTeXRIS

E Wörgötter, A Cozzi, V Gerdes. 1999-02-15. A parallel noise-robust algorithm to recover depth information from radial flow fields.. https://doi.org/10.1162/089976699300016700

Cite the original work for its findings. Save a collection to share your selection of sources.

KEEP EXPLORING

Related citations

A note on a generalized single step theory for any number of hierarchical genomic matrices.

BACKGROUND: The Single Step algorithm allows combining information from genotyped and un-genotyped individuals, provided they are connected by a pedigree. However, current single step theory is limited to a single list of markers. RESULTS: We present a generalized single step (GSS) method that can accommodate any number of hierarchical molecular datasets (e.g. sequence, high and low density arrays) and pedigree, avoiding imputation. We prove that a similar efficient inversion algorithm exists. The method is recursive, starting with the highest marker density scenario. We illustrate the method with simulation and show that GSS can increase predictive accuracy compared to standard single step. R code is provided so that custom scenarios can be easily compared, either with simulated or real data. CONCLUSION: The method developed generalizes extant single step theory to any number of hierarchical molecular relationship matrices, broadening the scenarios where single step can be applied. A topic of particular interest can be ecology field data or human populations where pedigree is not available, but where samples sequenced and genotyped at different densities can exist. GSS can also be a useful tool to optimize allocation of genotyping and / or sequencing resources.

Algorithms

cgDist: Nucleotide-level distance calculation from cgMLST allelic profiles.

Bacterial genomic surveillance requires balancing computational efficiency with genetic resolution for effective cluster investigation. cgMLST distance calculations treat all allelic differences as equivalent units, obscuring nucleotide-level variation. Furthermore, single nucleotide polymorphism-based pipelines provide finer resolution at substantially higher computational cost, which limits their routine deployment in surveillance laboratories. We present cgDist, an algorithm that calculates nucleotide-level distances directly from cgMLST allelic profiles, providing finer resolution than allele-count distances by leveraging within-allele nucleotide variation. The cache architecture stores alignment statistics, enabling distance calculation modes without computation and supporting both dataset-specific and schema-complete cache generation. This design enables incremental surveillance analysis, with performance benefits as laboratories accumulate alignment data. cgDist functions as a precision 'zoom lens' for the investigation of clusters identified through initial cgMLST screening. Rather than restructuring population relationships, this targeted approach concentrates enhanced resolution where it is most informative. The algorithm ensures that cgDist distances are greater than or equal to corresponding cgMLST distances, preserving epidemiological interpretability while adding genetic discrimination. By increasing resolution within identified clusters, cgDist may also support outbreak investigation, a potential application that remains to be evaluated on outbreak-derived data.

Algorithms

Theseus: fast and optimal affine-gap sequence-to-graph alignment.

MOTIVATION: Sequence-to-graph alignment is a central problem in bioinformatics, with applications in multiple sequence alignment (MSA) and pangenome analysis, among others. However, current algorithms for optimal affine-gap alignment impose high memory and computational requirements, limiting their scalability to aligning long sequences to complex graphs. Practical solutions partially address this problem using heuristic strategies that ultimately trade off optimality for speed. RESULTS: This work presents Theseus, a novel, fast, and optimal affine-gap sequence-to-graph alignment algorithm. Theseus leverages similarities between genomic sequences to accelerate the alignment computation and reduces the overall memory requirements without compromising optimality. To that end, Theseus processes only a subset of the dynamic programming cells, using a sparse-data strategy that enables efficient sequence-to-graph alignment. Moreover, our algorithm supports optimal affine-gap alignment on arbitrary directed graphs, including those with cycles. We evaluate Theseus on two key problems: MSA and pangenome read mapping. For MSA, we compare it against SPOA, abPOA, and POASTA. Theseus is 1.6× to 17.6× faster than POASTA, and 7.3× faster, on average, than SPOA, both optimal aligners. Compared with abPOA, Theseus ensures optimality and scales to the largest problems. For pangenome read mapping, we benchmark Theseus against the alignment stage of the mapping tool vg map, along with the alignment kernels of SPOA, abPOA, and POASTA. Theseus outperforms the other methods, showing a 1.9× to 16.9× speedup on short reads. Moreover, Theseus is 1.5× to 36.3× faster than vg when aligning against synthetic cyclic graphs. AVAILABILITY AND IMPLEMENTATION: Theseus code and documentation are publicly available at https://github.com/albertjimenezbl/theseus-lib.

Algorithms