Methods for rapid distinction between debris and growing cells
Methods of rapid distinction between growing cells and debris, which determine a time-lapse movie of specimen images, track features of each entity, and categorize each entity as growing cells or debris.
1. A method of rapid distinction using an e-Petri device having a light detector, the method of rapid distinction comprising: (a) acquiring at predefined time intervals multiple time-lapse movie images of a specimen when the specimen is located on a specimen surface of a transparent layer disposed on a sensing surface of the light detector, wherein each time-lapse image is constructed from a plurality of snapshot images sequentially sampled by the light detector, wherein each snapshot image is a projection image based on illumination transmitted through the specimen, and wherein the plurality of snapshot images include projection images sequentially captured by the light detector while the specimen is sequentially illuminated at different angles of incidence using an illumination source; (b) tracking one or more features of one or more entities in the specimen using the time-lapse movie images; and (c) categorizing each of the one or more entities based on the tracked features, wherein categorizing each entity of the one or more entities comprises categorizing as either an entity of interest or as debris, wherein the entity is categorized as an entity of interest if it is determined that the features of the entity change shape between the time-lapse movie images, and wherein the entity is categorizing as debris if it is determined that the features of the entity do not change shape between consecutively acquired time-lapse movie images.
2. The method of rapid distinction of claim 1 , wherein tracking features comprises determining whether the features have changed shape between consecutively acquired time-lapse movie images.
3. The method of rapid distinction of claim 1 , wherein an entity of interest is a growing bacterial colony.
4. The method of rapid distinction of claim 1 , wherein (a), (b), and (c) are repeated at regular intervals.
5. The method of rapid distinction of claim 1 , further comprising sending an indication of the presence of entity of interest in the specimen if at least one of the one or more entities is categorized as an entity of interest.
6. The method of rapid distinction of claim 1 , wherein (b) comprises:
thresholding the time-lapse movie images;
binarizing the time-lapse movie images; and
determining a center of mass of each entity in the time-lapse movie images.
7. The method of rapid distinction of claim 1 , wherein the predefined intervals are of at least one hour.
8. A method of rapid distinction using an e-Petri system comprising a transparent layer disposed on a sensing surface of a light detector, the transparent layer having a specimen surface, the method of rapid distinction comprising: (a) acquiring at predefined time intervals multiple time-lapse movie images of a specimen when the specimen is located on the specimen surface of the transparent layer, wherein each time-lapse image is constructed from a plurality of snapshot images sequentially sampled by the light detector, wherein each snapshot image is a projection image based on illumination transmitted through the specimen, and wherein the plurality of snapshot images include projection images sequentially captured by the light detector while the specimen is sequentially illuminated at different angles of incidence using an illumination source; (b) tracking one or more features of one or more entities in the specimen using the time-lapse movie images; and (c) categorizing each of the one or more entities based on the tracked features, wherein categorizing each entity of the one or more entities comprises categorizing as either an entity of interest or as debris, wherein the entity is categorized as an entity of interest if it is determined that the features of the entity change shape between the time-lapse movie images, and wherein the each entity is categorizing as debris if it is determined that the features of the entity do not change shape between consecutively acquired time-lapse movie images.
9. The method of rapid distinction of claim 8 , wherein the detector and specimen surface are part of an e-Petri device, wherein the e-Petri device with the specimen remains in an incubator during (a), (b), and (c).
10. The method of rapid distinction of claim 8 , wherein tracking features comprises determining whether the features have changed shape between consecutively acquired the time-lapse movie images.
11. The method of rapid distinction of claim 8 , wherein an entity of interest is a growing bacterial colony.
12. The method of rapid distinction of claim 8 , wherein (a), (b), and (c) are repeated at regular intervals.
13. The method of rapid distinction of claim 8 , wherein (b) comprises:
thresholding the time-lapse movie images;
binarizing the time-lapse movie images; and
determining a center of mass of each entity in the time-lapse movie images.