LEAD-DBS

LEAD-DBS is NOT intended for clinical use!

About Lead-DBS

LEAD-DBS is a MATLAB toolbox facilitating the:

reconstruction of deep-brain-stimulation (DBS) electrodes in the human brain on basis of postoperative MRI and/or CT imaging
the visualization of localization results in 2D/3D
a group-analysis of DBS-electrode placement results and their effects on clinical results
simulation of DBS stimulations (calculation of volume of activated tissue – VAT)
diffusion tensor imaging (DTI) based connectivity estimates and fiber-tracking from the VAT to other brain regions (connectomic surgery)

Installation

Prerequisites

Recommended RAM size: 32GB or more
MATLAB version: R2022a or later
The following MATLAB toolboxes
- MATLAB Image Processing Toolbox
- MATLAB Signal Processing Toolbox
- MATLAB Statistics and Machine Learning Toolbox
- MATLAB Curve Fitting Toolbox (optional)
- MATLAB Parallel Computing Toolbox (optional)
The SPM12 toolbox

Normal installation

Lead-DBS can be downloaded from our website in fully functional form.

Development installation

Alternatively, especially in case you wish to modify and contribute to Lead-DBS, you can

Make sure to meet the prerequisites
Clone the Lead-DBS repository from github.
Download the necessary data and unzip it into the cloned git repository.

We’d love to implement your improvements into Lead-DBS – please contact us for direct push access to Github or feel free to add pull-requests to the Lead-DBS repository.

Getting started

You can run Lead-DBS by typing "lead demo" into the Matlab prompt. This will open up the main GUI and a 3D viewer with an example patient. But there's much more to explore. Head over to our website to see a walkthrough tutorial, a manual, some more screenshots and other ressources. There's also a helpline in form of a Slack channel. We would love to hear from you.

Questions

If you have questions/problems when using Lead-DBS, you can checkout our:

Online manual
Workthrough videos
Knowledge base (including methods, cortical/subcortical atlases, connectomes, etc.)
Support forum
Auto-invite Slack workspace

Name		Name	Last commit message	Last commit date
Latest commit History 9,063 Commits
.github/ISSUE_TEMPLATE		.github/ISSUE_TEMPLATE
classes		classes
cleartune		cleartune
clinical		clinical
cluster		cluster
common		common
connectomics		connectomics
dbshub		dbshub
dependency		dependency
dev		dev
explorers		explorers
ext_libs		ext_libs
genetics		genetics
helpers		helpers
icons		icons
ls		ls
predict		predict
support_scripts		support_scripts
templates		templates
toolbox		toolbox
tools		tools
vatmodel		vatmodel
.gitattributes		.gitattributes
.gitignore		.gitignore
.version.txt		.version.txt
CITATION.cff		CITATION.cff
LICENSE.md		LICENSE.md
README.md		README.md
ea_absor.m		ea_absor.m
ea_activecontacts.m		ea_activecontacts.m
ea_add_overlay.m		ea_add_overlay.m
ea_add_overlay_singlefile.m		ea_add_overlay_singlefile.m
ea_addobj.m		ea_addobj.m
ea_amendtoolboxoptions.m		ea_amendtoolboxoptions.m
ea_anatomycontrol.fig		ea_anatomycontrol.fig
ea_anatomycontrol.m		ea_anatomycontrol.m
ea_anatomyslices.m		ea_anatomyslices.m
ea_anatpreprocess.m		ea_anatpreprocess.m
ea_apply_coregistration.m		ea_apply_coregistration.m
ea_apply_normalization.m		ea_apply_normalization.m
ea_apply_normalization_tofile.m		ea_apply_normalization_tofile.m
ea_applyscrfmat.m		ea_applyscrfmat.m
ea_assignbackdrop.m		ea_assignbackdrop.m
ea_atlasselect.fig		ea_atlasselect.fig
ea_atlasselect.m		ea_atlasselect.m
ea_autocoord.m		ea_autocoord.m
ea_build_DTD.m		ea_build_DTD.m
ea_busyaction.m		ea_busyaction.m
ea_calc_distance.m		ea_calc_distance.m
ea_calc_vatstats.m		ea_calc_vatstats.m
ea_centralcomponent.m		ea_centralcomponent.m
ea_centrality_significance.m		ea_centrality_significance.m
ea_centroid.m		ea_centroid.m
ea_checkfiles.m		ea_checkfiles.m
ea_checkinstall.m		ea_checkinstall.m
ea_checkmacaque.m		ea_checkmacaque.m
ea_checkreg.fig		ea_checkreg.fig
ea_checkreg.m		ea_checkreg.m
ea_checkspm.m		ea_checkspm.m
ea_checkstructures.fig		ea_checkstructures.fig
ea_checkstructures.m		ea_checkstructures.m
ea_command_line_run.m		ea_command_line_run.m
ea_compute_scrf.m		ea_compute_scrf.m
ea_concatfv.m		ea_concatfv.m
ea_concavehull.m		ea_concavehull.m
ea_conncomp.m		ea_conncomp.m
ea_coreg_fa.m		ea_coreg_fa.m
ea_coregimages.m		ea_coregimages.m
ea_coregmethod.m		ea_coregmethod.m
ea_coregpostopct.m		ea_coregpostopct.m
ea_coregpostopct_ants.m		ea_coregpostopct_ants.m
ea_coregpostopct_ants_multiple.m		ea_coregpostopct_ants_multiple.m
ea_coregpostopct_brainsfit.m		ea_coregpostopct_brainsfit.m
ea_coregpostopct_fsl.m		ea_coregpostopct_fsl.m
ea_coregpostopct_fsl_multiple.m		ea_coregpostopct_fsl_multiple.m
ea_coregpostopmr.m		ea_coregpostopmr.m
ea_coregpreopmr.m		ea_coregpreopmr.m
ea_correctcoords.m		ea_correctcoords.m
ea_cortexselect.fig		ea_cortexselect.fig
ea_cortexselect.m		ea_cortexselect.m
ea_create_tpm_darteltemplate.m		ea_create_tpm_darteltemplate.m
ea_createatlascheck.m		ea_createatlascheck.m
ea_createscrfmask.m		ea_createscrfmask.m
ea_credits.m		ea_credits.m
ea_cylinder.m		ea_cylinder.m
ea_defaultoptions.m		ea_defaultoptions.m
ea_defaultview.m		ea_defaultview.m
ea_defaultview_transition.m		ea_defaultview_transition.m
ea_detect_edges_3d.m		ea_detect_edges_3d.m
ea_detsides.m		ea_detsides.m
ea_detstimname.m		ea_detstimname.m
ea_detthresh.m		ea_detthresh.m
ea_dicm2nii.m		ea_dicm2nii.m
ea_diode_angle2roll.m		ea_diode_angle2roll.m
ea_diode_auto.m		ea_diode_auto.m
ea_diode_calculateCOG.m		ea_diode_calculateCOG.m
ea_diode_darkstar.m		ea_diode_darkstar.m
ea_diode_intensitypeaksFFT.m		ea_diode_intensitypeaksFFT.m
ea_diode_intensitypeaksdirmarker.m		ea_diode_intensitypeaksdirmarker.m
ea_diode_intensityprofile.m		ea_diode_intensityprofile.m

License

netstim/leaddbs

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