SG10201801648VA - Optical distortion correction for imaged samples - Google Patents
Optical distortion correction for imaged samplesInfo
- Publication number
- SG10201801648VA SG10201801648VA SG10201801648VA SG10201801648VA SG10201801648VA SG 10201801648V A SG10201801648V A SG 10201801648VA SG 10201801648V A SG10201801648V A SG 10201801648VA SG 10201801648V A SG10201801648V A SG 10201801648VA SG 10201801648V A SG10201801648V A SG 10201801648VA
- Authority
- SG
- Singapore
- Prior art keywords
- image
- distortion correction
- correction coefficients
- imaging
- during
- Prior art date
Links
- 230000003287 optical effect Effects 0.000 title abstract 2
- 238000003384 imaging method Methods 0.000 abstract 3
- PXFBZOLANLWPMH-UHFFFAOYSA-N 16-Epiaffinine Natural products C1C(C2=CC=CC=C2N2)=C2C(=O)CC2C(=CC)CN(C)C1C2CO PXFBZOLANLWPMH-UHFFFAOYSA-N 0.000 abstract 2
- 238000000034 method Methods 0.000 abstract 1
Classifications
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- G—PHYSICS
- G06—COMPUTING; CALCULATING OR COUNTING
- G06T—IMAGE DATA PROCESSING OR GENERATION, IN GENERAL
- G06T5/00—Image enhancement or restoration
- G06T5/80—Geometric correction
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- G—PHYSICS
- G06—COMPUTING; CALCULATING OR COUNTING
- G06T—IMAGE DATA PROCESSING OR GENERATION, IN GENERAL
- G06T3/00—Geometric image transformations in the plane of the image
- G06T3/04—Context-preserving transformations, e.g. by using an importance map
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- B—PERFORMING OPERATIONS; TRANSPORTING
- B01—PHYSICAL OR CHEMICAL PROCESSES OR APPARATUS IN GENERAL
- B01L—CHEMICAL OR PHYSICAL LABORATORY APPARATUS FOR GENERAL USE
- B01L3/00—Containers or dishes for laboratory use, e.g. laboratory glassware; Droppers
- B01L3/50—Containers for the purpose of retaining a material to be analysed, e.g. test tubes
- B01L3/502—Containers for the purpose of retaining a material to be analysed, e.g. test tubes with fluid transport, e.g. in multi-compartment structures
- B01L3/5027—Containers for the purpose of retaining a material to be analysed, e.g. test tubes with fluid transport, e.g. in multi-compartment structures by integrated microfluidic structures, i.e. dimensions of channels and chambers are such that surface tension forces are important, e.g. lab-on-a-chip
- B01L3/502715—Containers for the purpose of retaining a material to be analysed, e.g. test tubes with fluid transport, e.g. in multi-compartment structures by integrated microfluidic structures, i.e. dimensions of channels and chambers are such that surface tension forces are important, e.g. lab-on-a-chip characterised by interfacing components, e.g. fluidic, electrical, optical or mechanical interfaces
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- G—PHYSICS
- G01—MEASURING; TESTING
- G01B—MEASURING LENGTH, THICKNESS OR SIMILAR LINEAR DIMENSIONS; MEASURING ANGLES; MEASURING AREAS; MEASURING IRREGULARITIES OF SURFACES OR CONTOURS
- G01B11/00—Measuring arrangements characterised by the use of optical techniques
- G01B11/16—Measuring arrangements characterised by the use of optical techniques for measuring the deformation in a solid, e.g. optical strain gauge
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- G—PHYSICS
- G01—MEASURING; TESTING
- G01N—INVESTIGATING OR ANALYSING MATERIALS BY DETERMINING THEIR CHEMICAL OR PHYSICAL PROPERTIES
- G01N21/00—Investigating or analysing materials by the use of optical means, i.e. using sub-millimetre waves, infrared, visible or ultraviolet light
- G01N21/62—Systems in which the material investigated is excited whereby it emits light or causes a change in wavelength of the incident light
- G01N21/63—Systems in which the material investigated is excited whereby it emits light or causes a change in wavelength of the incident light optically excited
- G01N21/64—Fluorescence; Phosphorescence
- G01N21/645—Specially adapted constructive features of fluorimeters
- G01N21/6456—Spatial resolved fluorescence measurements; Imaging
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- G—PHYSICS
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- G06T—IMAGE DATA PROCESSING OR GENERATION, IN GENERAL
- G06T3/00—Geometric image transformations in the plane of the image
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- G06T3/147—Transformations for image registration, e.g. adjusting or mapping for alignment of images using affine transformations
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- G—PHYSICS
- G06—COMPUTING; CALCULATING OR COUNTING
- G06T—IMAGE DATA PROCESSING OR GENERATION, IN GENERAL
- G06T5/00—Image enhancement or restoration
- G06T5/73—Deblurring; Sharpening
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- G—PHYSICS
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- G06V10/24—Aligning, centring, orientation detection or correction of the image
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- G06V20/60—Type of objects
- G06V20/69—Microscopic objects, e.g. biological cells or cellular parts
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- H04N1/387—Composing, repositioning or otherwise geometrically modifying originals
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- H—ELECTRICITY
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- H04N1/40—Picture signal circuits
- H04N1/401—Compensating positionally unequal response of the pick-up or reproducing head
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- H04N1/409—Edge or detail enhancement; Noise or error suppression
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- H—ELECTRICITY
- H04—ELECTRIC COMMUNICATION TECHNIQUE
- H04N—PICTORIAL COMMUNICATION, e.g. TELEVISION
- H04N25/00—Circuitry of solid-state image sensors [SSIS]; Control thereof
- H04N25/60—Noise processing, e.g. detecting, correcting, reducing or removing noise
- H04N25/61—Noise processing, e.g. detecting, correcting, reducing or removing noise the noise originating only from the lens unit, e.g. flare, shading, vignetting or "cos4"
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- B—PERFORMING OPERATIONS; TRANSPORTING
- B01—PHYSICAL OR CHEMICAL PROCESSES OR APPARATUS IN GENERAL
- B01L—CHEMICAL OR PHYSICAL LABORATORY APPARATUS FOR GENERAL USE
- B01L2200/00—Solutions for specific problems relating to chemical or physical laboratory apparatus
- B01L2200/02—Adapting objects or devices to another
- B01L2200/025—Align devices or objects to ensure defined positions relative to each other
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- B—PERFORMING OPERATIONS; TRANSPORTING
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- B01L2300/00—Additional constructional details
- B01L2300/08—Geometry, shape and general structure
- B01L2300/0809—Geometry, shape and general structure rectangular shaped
- B01L2300/0829—Multi-well plates; Microtitration plates
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- B—PERFORMING OPERATIONS; TRANSPORTING
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- B01L—CHEMICAL OR PHYSICAL LABORATORY APPARATUS FOR GENERAL USE
- B01L2300/00—Additional constructional details
- B01L2300/08—Geometry, shape and general structure
- B01L2300/0861—Configuration of multiple channels and/or chambers in a single devices
- B01L2300/0877—Flow chambers
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- B—PERFORMING OPERATIONS; TRANSPORTING
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- B01L2300/00—Additional constructional details
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- B01L2300/0896—Nanoscaled
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- G—PHYSICS
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- G02B—OPTICAL ELEMENTS, SYSTEMS OR APPARATUS
- G02B21/00—Microscopes
- G02B21/36—Microscopes arranged for photographic purposes or projection purposes or digital imaging or video purposes including associated control and data processing arrangements
- G02B21/365—Control or image processing arrangements for digital or video microscopes
- G02B21/367—Control or image processing arrangements for digital or video microscopes providing an output produced by processing a plurality of individual source images, e.g. image tiling, montage, composite images, depth sectioning, image comparison
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- G—PHYSICS
- G02—OPTICS
- G02B—OPTICAL ELEMENTS, SYSTEMS OR APPARATUS
- G02B27/00—Optical systems or apparatus not provided for by any of the groups G02B1/00 - G02B26/00, G02B30/00
- G02B27/0025—Optical systems or apparatus not provided for by any of the groups G02B1/00 - G02B26/00, G02B30/00 for optical correction, e.g. distorsion, aberration
- G02B27/0031—Optical systems or apparatus not provided for by any of the groups G02B1/00 - G02B26/00, G02B30/00 for optical correction, e.g. distorsion, aberration for scanning purposes
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- G—PHYSICS
- G06—COMPUTING; CALCULATING OR COUNTING
- G06T—IMAGE DATA PROCESSING OR GENERATION, IN GENERAL
- G06T2207/00—Indexing scheme for image analysis or image enhancement
- G06T2207/20—Special algorithmic details
- G06T2207/20021—Dividing image into blocks, subimages or windows
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- G—PHYSICS
- G06—COMPUTING; CALCULATING OR COUNTING
- G06T—IMAGE DATA PROCESSING OR GENERATION, IN GENERAL
- G06T2207/00—Indexing scheme for image analysis or image enhancement
- G06T2207/30—Subject of image; Context of image processing
- G06T2207/30004—Biomedical image processing
- G06T2207/30072—Microarray; Biochip, DNA array; Well plate
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- G—PHYSICS
- G06—COMPUTING; CALCULATING OR COUNTING
- G06V—IMAGE OR VIDEO RECOGNITION OR UNDERSTANDING
- G06V10/00—Arrangements for image or video recognition or understanding
- G06V10/20—Image preprocessing
- G06V10/24—Aligning, centring, orientation detection or correction of the image
- G06V10/247—Aligning, centring, orientation detection or correction of the image by affine transforms, e.g. correction due to perspective effects; Quadrilaterals, e.g. trapezoids
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- H—ELECTRICITY
- H01—ELECTRIC ELEMENTS
- H01J—ELECTRIC DISCHARGE TUBES OR DISCHARGE LAMPS
- H01J2237/00—Discharge tubes exposing object to beam, e.g. for analysis treatment, etching, imaging
- H01J2237/26—Electron or ion microscopes
- H01J2237/28—Scanning microscopes
- H01J2237/2813—Scanning microscopes characterised by the application
- H01J2237/2817—Pattern inspection
Landscapes
- Engineering & Computer Science (AREA)
- Physics & Mathematics (AREA)
- General Physics & Mathematics (AREA)
- Theoretical Computer Science (AREA)
- Multimedia (AREA)
- Health & Medical Sciences (AREA)
- Signal Processing (AREA)
- Chemical & Material Sciences (AREA)
- General Health & Medical Sciences (AREA)
- Life Sciences & Earth Sciences (AREA)
- Analytical Chemistry (AREA)
- Molecular Biology (AREA)
- Biomedical Technology (AREA)
- Pathology (AREA)
- Biochemistry (AREA)
- Immunology (AREA)
- Nuclear Medicine, Radiotherapy & Molecular Imaging (AREA)
- Optics & Photonics (AREA)
- Chemical Kinetics & Catalysis (AREA)
- Hematology (AREA)
- Clinical Laboratory Science (AREA)
- Dispersion Chemistry (AREA)
- Investigating, Analyzing Materials By Fluorescence Or Luminescence (AREA)
- Geometry (AREA)
- Microscoopes, Condenser (AREA)
- Image Processing (AREA)
- Studio Devices (AREA)
- Optical Communication System (AREA)
Abstract
OPTICAL DISTORTION CORRECTION FOR IMAGED SAMPLES Techniques are described for dynamically correcting image distortion during imaging of a patterned sample having repeating spots. Different sets of image distortion correction coefficients may be calculated for different regions of a sample during a first imaging cycle of a multicycle imaging run and subsequently applied in real time to image data generated during subsequent cycles. In one implementation, image distortion correction coefficients may be calculated for an image of a patterned sample having repeated spots by: estimating an affine transform of the image; sharpening the image; and iteratively searching for an optimal set of distortion correction coefficients for the sharpened image, where iteratively searching for the optimal set of distortion correction coefficients for the sharpened image includes calculating a mean chastity for spot locations in the image, and where the estimated affine transform is applied during each iteration of the search. [Figure 2A]
Applications Claiming Priority (2)
Application Number | Priority Date | Filing Date | Title |
---|---|---|---|
US201762468347P | 2017-03-07 | 2017-03-07 | |
NL2018852A NL2018852B1 (en) | 2017-05-05 | 2017-05-05 | Optical distortion correction for imaged samples |
Publications (1)
Publication Number | Publication Date |
---|---|
SG10201801648VA true SG10201801648VA (en) | 2018-10-30 |
Family
ID=59521607
Family Applications (2)
Application Number | Title | Priority Date | Filing Date |
---|---|---|---|
SG10201801648VA SG10201801648VA (en) | 2017-03-07 | 2018-02-28 | Optical distortion correction for imaged samples |
SG10202002144PA SG10202002144PA (en) | 2017-03-07 | 2018-02-28 | Optical distortion correction for imaged samples |
Family Applications After (1)
Application Number | Title | Priority Date | Filing Date |
---|---|---|---|
SG10202002144PA SG10202002144PA (en) | 2017-03-07 | 2018-02-28 | Optical distortion correction for imaged samples |
Country Status (15)
Country | Link |
---|---|
US (5) | US10152776B2 (en) |
EP (2) | EP4187234A1 (en) |
JP (2) | JP6563539B2 (en) |
KR (2) | KR102072232B1 (en) |
CN (2) | CN111652797A (en) |
AU (1) | AU2018201352B2 (en) |
BR (1) | BR102018004557A2 (en) |
CA (2) | CA3139142C (en) |
ES (1) | ES2948760T3 (en) |
IL (1) | IL257826B (en) |
NL (1) | NL2018852B1 (en) |
NZ (1) | NZ740201A (en) |
SA (1) | SA118390405B1 (en) |
SG (2) | SG10201801648VA (en) |
TW (2) | TWI685653B (en) |
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CN111062400B (en) * | 2018-10-16 | 2024-04-30 | 浙江宇视科技有限公司 | Target matching method and device |
CN111351794B (en) * | 2018-12-20 | 2021-12-10 | 上海微电子装备(集团)股份有限公司 | Object surface detection device and detection method |
EP4321922A2 (en) | 2019-01-28 | 2024-02-14 | The General Hospital Corporation | Speckle-based image distortion correction for laser scanning microscopy |
US11783917B2 (en) | 2019-03-21 | 2023-10-10 | Illumina, Inc. | Artificial intelligence-based base calling |
WO2020191390A2 (en) * | 2019-03-21 | 2020-09-24 | Illumina, Inc. | Artificial intelligence-based quality scoring |
NL2023316B1 (en) * | 2019-03-21 | 2020-09-28 | Illumina Inc | Artificial intelligence-based sequencing |
US11210554B2 (en) | 2019-03-21 | 2021-12-28 | Illumina, Inc. | Artificial intelligence-based generation of sequencing metadata |
NL2023314B1 (en) * | 2019-03-21 | 2020-09-28 | Illumina Inc | Artificial intelligence-based quality scoring |
US11593649B2 (en) | 2019-05-16 | 2023-02-28 | Illumina, Inc. | Base calling using convolutions |
CA3158891A1 (en) * | 2019-11-22 | 2021-05-27 | Neil Ira WEISENFELD | Systems and methods for spatial analysis of analytes using fiducial alignment |
WO2021168353A2 (en) | 2020-02-20 | 2021-08-26 | Illumina, Inc. | Artificial intelligence-based many-to-many base calling |
US11188778B1 (en) * | 2020-05-05 | 2021-11-30 | Illumina, Inc. | Equalization-based image processing and spatial crosstalk attenuator |
US11443411B2 (en) | 2020-07-08 | 2022-09-13 | Nxp Usa, Inc. | Method and system for image distortion correction using quarter and tangential lookup tables |
US11200446B1 (en) | 2020-08-31 | 2021-12-14 | Element Biosciences, Inc. | Single-pass primary analysis |
US11361194B2 (en) | 2020-10-27 | 2022-06-14 | Illumina, Inc. | Systems and methods for per-cluster intensity correction and base calling |
CN112489115B (en) * | 2020-11-27 | 2023-09-08 | 杭州海康威视数字技术股份有限公司 | Light-emitting module positioning method, device, electronic equipment, storage medium and system |
KR20220108734A (en) * | 2021-01-25 | 2022-08-03 | 주식회사 나노엔텍 | microparticle counting method using multi-channel sample chip and microparticle counting device implementing the same |
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US20220336054A1 (en) | 2021-04-15 | 2022-10-20 | Illumina, Inc. | Deep Convolutional Neural Networks to Predict Variant Pathogenicity using Three-Dimensional (3D) Protein Structures |
AU2022296802A1 (en) * | 2021-06-25 | 2024-01-04 | Illumina, Inc. | Linear fourier fiducial |
US11455487B1 (en) | 2021-10-26 | 2022-09-27 | Illumina Software, Inc. | Intensity extraction and crosstalk attenuation using interpolation and adaptation for base calling |
WO2023158809A1 (en) | 2022-02-17 | 2023-08-24 | Illumina, Inc. | Ai-driven enhancement of motion blurred sequencing images |
WO2023158804A1 (en) | 2022-02-17 | 2023-08-24 | Illumina, Inc. | Ai-driven signal enhancement of sequencing images |
WO2023239917A1 (en) * | 2022-06-09 | 2023-12-14 | Illumina, Inc. | Dependence of base calling on flow cell tilt |
CN115242985B (en) * | 2022-07-08 | 2024-05-03 | 苏州华星光电技术有限公司 | Image pickup apparatus correction method and image pickup apparatus correction apparatus |
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2017
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2018
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- 2018-02-23 NZ NZ74020118A patent/NZ740201A/en unknown
- 2018-02-26 CA CA3139142A patent/CA3139142C/en active Active
- 2018-02-26 CA CA2996541A patent/CA2996541C/en active Active
- 2018-02-26 JP JP2018032025A patent/JP6563539B2/en active Active
- 2018-02-27 TW TW107106625A patent/TWI685653B/en active
- 2018-02-27 TW TW109100583A patent/TWI728645B/en active
- 2018-02-28 SG SG10201801648VA patent/SG10201801648VA/en unknown
- 2018-02-28 SG SG10202002144PA patent/SG10202002144PA/en unknown
- 2018-03-01 US US15/909,437 patent/US10152776B2/en active Active
- 2018-03-02 IL IL257826A patent/IL257826B/en active IP Right Grant
- 2018-03-05 SA SA118390405A patent/SA118390405B1/en unknown
- 2018-03-06 EP EP23151672.5A patent/EP4187234A1/en active Pending
- 2018-03-06 EP EP18160337.4A patent/EP3373238B1/en active Active
- 2018-03-06 ES ES18160337T patent/ES2948760T3/en active Active
- 2018-03-07 BR BR102018004557A patent/BR102018004557A2/en not_active Application Discontinuation
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2020
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2021
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2022
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2023
- 2023-10-05 US US18/481,442 patent/US20240029217A1/en active Pending
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