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DiSSCo / SDR

Specimen Data Refinery
Apache License 2.0
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Create a Galaxy tool using Mothra #53

Closed llivermore closed 1 year ago

llivermore commented 2 years ago

https://github.com/machine-shop/mothra

PaulBrack commented 2 years ago

How internally componentised are the internal tools (e.g. tag detection) - could we use these as separate tools?

llivermore commented 2 years ago

The description for Subtask 8.2.3 "Image analysis" is as follows:

Configurable specimen colour analysis and measurement tools will be developed. This will include semantic segmentation of features of interest in images (e.g. labels, specimens, landmarks). Prototypes will be developed for

  1. Automated collection assessment tools (e.g. verdigris in entomological collections, degradation of microscope slide mountants, pest damage/activity);
  2. Automated identification of higher taxa and morphological traits using machine learning; and
  3. Detection of erroneous determinations of specimens through pattern recognition (e.g. outlier detection).
llivermore commented 1 year ago

@OliverWoolland can you take a look at this and see how easy it looks to implement as a Dockerised tool for the SDR? We may need to look at the input requirements together.

OliverWoolland commented 1 year ago

A functioning Mothra tool has now been developed. See 47ea8fae3b0838fbcf26fd56254624ca5bbeaad8 and b3dc9602c4f2144c344017c7271465c6bc984c25