Table 1. List of all representative files.
| File name | Type | Description | Use |
| Neurite Quantitation.xlsx | XLSX | Spreadsheet to collect the data from the pixel count, pixel length estimation, convex hull area, and neurite path distance | Data collection of pixel count to estimate axonal/dendritic length and somatic distance |
| Bouton distance.docx | DOCX | List of reported ultrastructural measurements for axonal bouton distance in the hippocampal formation | Estimation of the number of synapses and contacts per neuronal pair |
| Dendritic spine distance.docx | DOCX | List of reported ultrastructural measurements for dendritic spine distance in the hippocampal formation | Estimation of the number of synapses and contacts per neuronal pair |
| Harris-Stewart-2001-41-BrainRes-Fig2A/Harris-Stewart-2001-41-BrainRes-Fig2A.pdf | Original file that contains the neuronal reconstruction from a Subiculum CA1 Projecting Pyramidal cell | Image manipulation with GIMP | |
| Harris-Stewart-2001-41-BrainRes-Fig2A/Harris-Stewart-2001-41-BrainRes-Fig2A.xcf | XCF | File generated with GIMP for manipulation | Exported file without modifications |
| Harris-Stewart-2001-41-BrainRes-Fig2A/Harris-Stewart-2001-41-BrainRes-Fig2A.png | PNG | Exported PNG file without modifications from the XCF version |
1. Scale bar conversion with Plot Digitizer 2. Somatic distance estimation with SNT |
| Harris-Stewart-2001-41-BrainRes-Fig2A/Sub_CA1 projecting Pyramidal_all_allcolors_both.xcf | XCF | File saved with GIMP for manipulation that includes brain region, cell type, and parcel information | Segregation of axons and dendrites with GIMP |
| Harris-Stewart-2001-41-BrainRes-Fig2A/Sub_CA1 projecting Pyramidal_all_allcolors_Ds.xcf | XCF | File that contains only dendrites in all the parcels | Segregation of dendrites based on parcel borders with GIMP |
| Harris-Stewart-2001-41-BrainRes-Fig2A/Sub_CA1 projecting Pyramidal_all_allcolors_Ds.png | PNG | Exported PNG file with only dendrites from the XCF version | Dendritic somatic distance estimation with SNT, if you cannot discern axons and dendrites from Harris-Stewart-2001-41-BrainRes-Fig2A.png file |
| Harris-Stewart-2001-41-BrainRes-Fig2A/Sub_CA1 projecting Pyramidal_SM_allcolors_Ds.xcf | XCF | File that contains only dendrites in SUB:SM | Saved file with dendrites in Sub:SM for future edits if needed |
| Harris-Stewart-2001-41-BrainRes-Fig2A/Sub_CA1 projecting Pyramidal_SM_allcolors_Ds.png | PNG | Exported PNG file with only dendrites in Sub:SM |
1. Pixel count with MATLAB 2. Convex hull area estimation with Fiji: Hull And Circle |
| Harris-Stewart-2001-41-BrainRes-Fig2A/Sub_CA1 projecting Pyramidal_SP_allcolors_Ds.xcf | XCF | File that contains only dendrites in Sub:SP | Saved file with dendrites in Sub:SP for future edits if needed |
| Harris-Stewart-2001-41-BrainRes-Fig2A/Sub_CA1 projecting Pyramidal_SP_allcolors_Ds.png | PNG | Exported PNG file with only dendrites in Sub:SP |
1. Pixel count with MATLAB 2. Convex hull area estimation with Fiji: Hull And Circle |
| Harris-Stewart-2001-41-BrainRes-Fig2A/Sub_CA1 projecting Pyramidal_all_allcolors_Ax.xcf | XCF | File that contains only axons in all the parcels | Segregation of axons based on parcel borders with GIMP |
| Harris-Stewart-2001-41-BrainRes-Fig2A/Sub_CA1 projecting Pyramidal_all_allcolors_Ax.png | PNG | Exported PNG file with only axons from the XCF version | Axonal somatic distance estimation with SNT, if you cannot discern axons and dendrites from Harris-Stewart-2001-41-BrainRes-Fig2A.png file |
| Harris-Stewart-2001-41-BrainRes-Fig2A/Sub_CA1 projecting Pyramidal_SM_allcolors_Ax.xcf | XCF | File that contains only axons in Sub:SM | Saved file with axons in Sub:SM for future edits if needed |
| Harris-Stewart-2001-41-BrainRes-Fig2A/Sub_CA1 projecting Pyramidal_SM_allcolors_Ax.png | PNG | Exported PNG file with only axons in Sub:SM |
1. Pixel count with MATLAB 2. Convex hull area estimation with Fiji: Hull And Circle |
| Harris-Stewart-2001-41-BrainRes-Fig2A/Sub_CA1 projecting Pyramidal_SP_allcolors_Ax.xcf | XCF | File that contains only axons in Sub:SP | Saved file with axons in Sub:SP for future edits if needed |
| Harris-Stewart-2001-41-BrainRes-Fig2A/Sub_CA1 projecting Pyramidal_SP_allcolors_Ax.png | PNG | Exported PNG file with only axons in Sub:SP |
1. Pixel count with MATLAB 2. Convex hull area estimation with Fiji: Hull And Circle |
| Harris-Stewart-2001-41-BrainRes-Fig2A/Sub_CA1 projecting Pyramidal_PL_allcolors_Ax.xcf | XCF | File that contains only axons in Sub:PL | Saved file with axons in Sub:PL for future edits if needed |
| Harris-Stewart-2001-41-BrainRes-Fig2A/Sub_CA1 projecting Pyramidal_PL_allcolors_Ax.png | PNG | Exported PNG file with only axons in Sub:PL |
1. Pixel count with MATLAB 2. Convex hull area estimation with Fiji: Hull And Circle |
| Harris-Stewart-2001-41-BrainRes-Fig2A/Sub_CA1 projecting Pyramidal_CA1 SLM_allcolors_Ax.xcf | XCF | File that contains only axons in CA1:SLM | Saved file with axons in CA1:SLM for future edits if needed |
| Harris-Stewart-2001-41-BrainRes-Fig2A/Sub_CA1 projecting Pyramidal_CA1 SLM_allcolors_Ax.png | PNG | Exported PNG file with only axons in CA1:SLM |
1. Pixel count with MATLAB 2. Convex hull area estimation with Fiji: Hull And Circle |
| Harris-Stewart-2001-41-BrainRes-Fig2A/Sub_CA1 projecting Pyramidal_CA1 SR_allcolors_Ax.xcf | XCF | File that contains only axons in CA1:SR | Saved file with axons in CA1:SR for future edits if needed |
| Harris-Stewart-2001-41-BrainRes-Fig2A/Sub_CA1 projecting Pyramidal_CA1 SR_allcolors_Ax.png | PNG | Exported PNG file with only axons in CA1:SR |
1. Pixel count with MATLAB 2. Convex hull area estimation with Fiji: Hull And Circle |
| Bannister-Larkman-1995-150-JCompNeurol-Fig10A/Bannister-Larkman-1995-150-JCompNeurol-Fig10A.pdf | Original file that contains the neuronal reconstruction from a CA1 Pyramidal cell | Image manipulation with GIMP | |
| Bannister-Larkman-1995-150-JCompNeurol-Fig10A/Bannister-Larkman-1995-150-JCompNeurol-Fig10A.png | PNG | Exported PNG file without modifications from the XCF version | Somatic distance estimation with SNT |
| Bannister-Larkman-1995-150-JCompNeurol-Fig10A/Bannister-Larkman-1995-150-JCompNeurol-Fig10A.traces | TRACES | File that includes the tracings and measurements associated with the neuronal reconstruction | Saved tracings for reference and review if needed |
| Bannister-Larkman-1995-150-JCompNeurol-Fig10A/Hull And Circle Results.csv | CSV | File with measurements for the convex hull area associated with the neuronal reconstruction | Saved measurements for reference and review if needed |
| Martina-Jonas-2000-295-Science-Fig1C.pdf | Original file that contains the neuronal reconstruction from a CA1 O-LM interneuron | Image manipulation with GIMP | |
| Somogyi-Klausberger-2005-9-JPhysiol-Fig3A.pdf | Original file that contains the neuronal reconstruction from a CA1 Bistratified interneuron | Image manipulation with GIMP |