A parasite analysis system comprising: a pressure vessel configured to store a biological sample; an imaging cell controllably connected to the pressure vessel, wherein an input valve controls whether biological sample can flow from the pressure vessel into the imaging cell; a waste depository controllably connected to the imaging cell, wherein an output valve controls whether biological sample can flow from the imaging cell into the waste depository; a camera configured to capture a chronological set of images of a portion of the biological sample in the imaging cell; and an image analysis system configured to analyze the chronological set of images to generate an estimate of a number of parasites in the portion of the biological sample, wherein being configured to analyze the chronological set of images includes being configured to: identify patches of a predetermined size in at least some images of the chronological set of images as candidate patches for depicting a parasite, each candidate patch being a portion of a corresponding image of the at least some images and having a location within the corresponding image; apply a classifier to the candidate patches to identify a subset of the candidate patches that depict a parasite; and generate the estimate of the number of parasites in the portion of the biological sample based on the locations of candidate patches identified as depicting a parasite. a pressure vessel configured to store a biological sample; an imaging cell controllably connected to the pressure vessel, wherein an input valve controls whether biological sample can flow from the pressure vessel into the imaging cell; a waste depository controllably connected to the imaging cell, wherein an output valve controls whether biological sample can flow from the imaging cell into the waste depository; a camera configured to capture a chronological set of images of a portion of the biological sample in the imaging cell; and an image analysis system configured to analyze the chronological set of images to generate an estimate of a number of parasites in the portion of the biological sample, wherein being configured to analyze the chronological set of images includes being configured to: identify patches of a predetermined size in at least some images of the chronological set of images as candidate patches for depicting a parasite, each candidate patch being a portion of a corresponding image of the at least some images and having a location within the corresponding image; apply a classifier to the candidate patches to identify a subset of the candidate patches that depict a parasite; and generate the estimate of the number of parasites in the portion of the biological sample based on the locations of candidate patches identified as depicting a parasite. identify patches of a predetermined size in at least some images of the chronological set of images as candidate patches for depicting a parasite, each candidate patch being a portion of a corresponding image of the at least some images and having a location within the corresponding image; apply a classifier to the candidate patches to identify a subset of the candidate patches that depict a parasite; and generate the estimate of the number of parasites in the portion of the biological sample based on the locations of candidate patches identified as depicting a parasite.