Data release white paper updates

[GaelleChapuis]

The white paper on data release needs updating for the resubmission of the BW paper:
https://www.overleaf.com/project/634d7d7f9cdfe00b07009709
https://figshare.com/articles/preprint/Data_release_-_Brainwide_map_-_Q4_2022/21400815?file=38761482

• L68-71: N mice / units / insertions / sessions
• L 74: coverage % with 1 probe
• L78: verify criteria for region inclusion, N region included
• Figure 2: panel a-b redo
• L98: QC sheet: update with latest insertions / sessions
• L101: Do we still use iblenv issues ? -- keep for now
• L113-115: N mice, age, weight
• L202: coverage % with 1 probe and 2 probes
• L223: check amplitude criteria
• L226: N units and good units
• L256: raw video QC numbers
• L272: pose estimation QC numbers
• L285: pupil QC numbers
• L293: raw ephys and spike sorting QC numbers -- unchanged
• L374: pykilosort reference into iblsort
• L267/270: remove "github repository" links, replace with docs links
• check all links

Main todos:

• QC sheet update : session @mayofaulkner new sheet
• QC sheet update : ephys raw + spike sorting -- do not update, but put current labels in Alyx, @oliche
• Numbers: mice / insertions / units + good units / sessions @oliche
• Mice age, weight @GaelleChapuis
• coverage with 1 + 2 probes @GaelleChapuis
• Fig 2 panel : 3D brain with insertions @mschart
• Fig 2 panel: bar plot with N neurons @mschart
• Video QC: raw, pose estimation, pupil @mayofaulkner @themattinthehatt

[GaelleChapuis]

Coverage:

0 4.068118
1 7.85386
2 87.061564
date 2024-03-24
type flip_metric

https://github.com/int-brain-lab/ibldevtools/blob/master/Gaelle/PhysWG/coverage/20220421__launch_coverage_gui_with_insertions_todo.py

[GaelleChapuis]

N subject: 139
AGE RANGE: 13-173 weeks; mean 44.35 weeks, median 27.0 weeks
WEIGHT RANGE: 16.1-35.7 g; mean 23.84 g, median 23.9 g

https://github.com/int-brain-lab/paper-brain-wide-map/blob/main/brainwidemap/meta/mice_info.py