Add spike_net:_create_benchmark_datasets_by_manually_picking_visible_spikes to projects folder

projects/spike_net:_create_benchmark_datasets_by_manually_picking_visible_spikes/README.md

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+# Project title:
+Spike Net: Create benchmark datasets by manually picking visible spikes
+### Key Investigators
+
+* Gaelle Chapuis, Olivier Winter, Alessio Buccino
+* (all the code comes from Olivier Winter !)
+
+## Project Description
+To assess the precision and recall of a spike sorter spike detection, there are a few approaches - hybrid datasets, ground truth datasets with intracellular recordings performed juxtacellularly ; but these datasets are either missing some natural components, or are rare.
+Here we propose to enhance our pool of dataset by having humans labelling visible spikes on raw data, recorded in several brain regions.
+
+### Background
+
+viewephys is a viewer of raw ephys data developed by Olivier Winter at the International Brain Laboratory:
+https://github.com/int-brain-lab/viewephys
+
+We propose to develop the benchmarks using the IBL datasets publicly available:
+http://reveal.internationalbrainlab.org.s3-website-us-east-1.amazonaws.com/benchmarks.html#/0/2
+Loading code: https://int-brain-lab.github.io/iblenv/notebooks_external/loading_raw_ephys_data.html
+
+### Objectives
+The main work at this hackathon will focus on documenting and amending the viewephys desktop app to perform manual spike picking -- from there, it can be later input into a web platform (but this will not be done at this Hackathon).
+
+### Approach and Plan
+
+Fill in with approach and project plan
+
+ * [ ] Task 1: download data for one IBL raw data snippet, launch the view into the GUI
+ * [ ] Task 2: pick a few spikes, save and reload --> write all the code and documentation for this, so someone else can redo it [some functions may require changes, especially if we want to label visible clusters]
+ * [ ] Task 3: finish the picking for one insertion (if not more)
+ * [ ] Task 4: (if time allows): mesure precision and recall from spike sorting on this particular snippet of data
+
+### Progress
+
+Fill in with tentative milestones (or leave blank for later):
+
+ * [ ] Milestone 1 : documentation of picking for others to do as well (ideally someone else would have tried doing it to validate this milestone)
+ * [ ] Milestone 2 : 1 snippet finished
+ * [ ] Milestone 3 : mesure quality of a spike sorter detection on this snippet
+
+### Next Steps (optional)
+
+- Liase with others in the community to do the spike picking
+- See if someone would be interested to port this into a web application
+- Discuss where the spike picking datasets should be saved ?
+
+## References
+
+Spike net: https://docs.google.com/document/d/1OA69Ptg58AQnGdmGi6UvZFrngwZDMixil1V7hJX6bNI/edit
+

projects/spike_net:_create_benchmark_datasets_by_manually_picking_visible_spikes/src/README.md

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+Add your code here