# This is a combination of 9 commits.

# This is the 1st commit message:

Update with master file including all image metadata

# This is the commit message #2:

Add notebook that generates master image catalog

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Add master CSV to git LFS tracking

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Add file type column to master CSV

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Explore duplicate CAMIDs and add file type column, make dorsal file with duplicate indicator.

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Add CSV of just dorsal images with CAMID duplicate indicator.

# This is the commit message #7:

Add updated notebook that made the updated CSVs

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Remove excess filetypes that were added

# This is the commit message #9:

Update readme with more information regarding multiple zenodo records and details of duplication of specimens.

.gitattributes

@@ -53,3 +53,6 @@ saved_model/**/* filter=lfs diff=lfs merge=lfs -text
 *.jpg filter=lfs diff=lfs merge=lfs -text
 *.jpeg filter=lfs diff=lfs merge=lfs -text
 *.webp filter=lfs diff=lfs merge=lfs -text
+
+Jiggins_Zenodo_Img_Master.csv filter=lfs diff=lfs merge=lfs -text
+

Jiggins_Zenodo_dorsal_Img_Master.csv

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+oid sha256:2034f2b00a4849e80b7707934c67331c6761318d023799c661165c7bf2d00f50
+size 5771003

README.md

@@ -30,8 +30,8 @@ language:
 ### Dataset Summary
 
 Subset of the collection records from the research group of Chris Jiggins at the University of Cambridge derived from almost 20 years of field studies. 
-This subset contains approximately 34,000 RGB images across all Heliconius. Many records include images as well as locality data. 
-All detached wings were photographed with a DSLR camera with a 100 mm macro-lens in standardized conditions; images and full records with data are stored in the [EarthCape database](https://heliconius.ecdb.io/default.aspx) and on [Zenodo](https://doi.org/10.5281/zenodo.4289223).
+This subset contains approximately 49,359 RGB images of 12,586 specimens across all Heliconius. Many records include images as well as locality data. 
+All detached wings were photographed with a DSLR camera with a 100 mm macro-lens in standardized conditions; images and full records with data are stored in the [EarthCape database](https://heliconius.ecdb.io/default.aspx) and on [Zenodo](https://zenodo.org/communities/butterfly?q=&l=list&p=1&s=10&sort=newest) (across 32 records from the Butterfly Genetics Group).
 
 Both dorsal and ventral images available. Contains both whole butterfly, and 4 wings separate. Large variation in image content.
 
@@ -48,27 +48,29 @@ This dataset card aims to be a base template for new datasets. It has been gener
 
 ## Dataset Structure
 
-* **Jiggins_Zenodo_Img_Master.csv:** Information for the approximately 34,000 unprocessed image files included in the Jiggins Heliconius Collection.
+* **Jiggins_Zenodo_Img_Master.csv:** Information for the approximately 49,0000 unprocessed image files included in the Jiggins Heliconius Collection. Image types are `jpg`, `raw` (.CR2) and `tif`.
      * To access the images combine columns `zenodo_link` and `Image_name`:
        ```
        zenodo_link + '/files/' + Image_name
        ```
 
+* **Jiggins_Zenodo_dorsal_Img_Master.csv:** Subset of 24,318 images from `Jiggins_Zenodo_Img_Master.csv` with a dorsal view of the butterflies (note that some have both dorsal and ventral). This subset includes 12,296 unique specimens. Accessing the images from Zenodo works the same as above, and image types are `jpg`, `raw` (.CR2) and `tif`.
+
 ### Data Instances
 
-Multiple species of Heliconius including erato and melpomene.
+Multiple species of Heliconius (including erato and melpomene), as well as some others (to be removed in a Jiggins_Zenodo_Img_Heliconius file).
 Detached wings in four quadrants (generally).
 Some subspecies may be photographed differently, needs segmentation preprocessing.
 
 * **Type:** JPG/jpg/tif(very few)
 * **Size (x pixels by y pixels):** Unknown yet
-* **Background (color or none):** multiple (needs to be normalised)
+* **Background (color or none):** multiple (needs to be normalized)
 * **Fit in frame:**
 * **Ruler or Scale:** Some with Ruler
 * **Color (ColorChecker, white-balance, None):** None
 
 #### Preprocessing steps (to be done):
-1. Hybrid separation - some images labeled as H.erato and H. melpomene without subspecies names are hybrids and need to be determined what subspecies they are.
+1. Hybrid separation - some images labeled as _H. erato_ and _H. melpomene_ without subspecies names are hybrids and need to be determined what subspecies they are.
 2. Label correction - along with step 1.
 3. Removal of subspecies with no mimic pairs.
 4. Segmentation of four wings from images so we can focus on forewings vs hindwings: [WingSeg](https://github.com/agporto/WingSeg).
@@ -146,9 +148,7 @@ None
 
 Christopher Lawrence, Chris Jiggins, Butterfly Genetics Group (University of Cambridge). (2023). Jiggins Heliconius Collection. Hugging Face. https://huggingface.co/datasets/imageomics/Jiggins_Heliconius_Collection.
 
-If you use this dataset, please cite the original dataset (citation below) as well as this curated subset.
-
-Gabriela Montejo-Kovacevich, Eva van der Heijden, Nicola Nadeau, & Chris Jiggins. (2020). Cambridge butterfly wing collection batch 10. Zenodo. https://doi.org/10.5281/zenodo.4289223
+If you use this dataset, please cite the original datasets (citations for all 32 Zenodo records are in licenses.json) as well as this curated subset. 
 
 ### Contributions
 

notebooks/make_Jiggins_Img_Master.ipynb

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