diff --git a/README.md b/README.md index 9c6dff5..b1cbfa1 100644 --- a/README.md +++ b/README.md @@ -4,5 +4,5 @@ Welcome to the *TI Planning Tool* (TIP) user manual. This document provides back

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diff --git a/_sidebar.md b/_sidebar.md index 3ce9f11..8b32023 100644 --- a/_sidebar.md +++ b/_sidebar.md @@ -19,10 +19,16 @@ * [Landing Page](/docs/platform_introduction/overview.md) * [Dashboard](/docs/platform_introduction/dashboard.md) * [Data](/docs/platform_introduction/data.md) + * [Billing Center](/docs/platform_introduction/billing_center.md) * [Creating a New Plan](/docs/plan/create_new_plan.md) - * [Step 1: Setup](/docs/services/electrode_selector.md) - * [Step 2: Optimal Configuration Identification](/docs/services/post_processing.md) - * [Step 3: Exposure Analysis](/docs/services/s4l_post_processing.md) + * [Step 0: Preparing Your Data](/docs/services/file_picker.md) + * [Step 1: Images Processing](/docs/services/personalizer.md) + * [Step 2: Fiducials Placement](/docs/services/fiducials_placement.md) + * [Step 3: Electrode Placement](/docs/services/electrode_placement.md) + * [Step 4: EM Simulations](/docs/services/simulator.md) + * [Step 5: Setup](/docs/services/electrode_selector.md) + * [Step 6: Optimal Configuration Identification](/docs/services/post_processing.md) + * [Step 7: Exposure Analysis](/docs/services/s4l_post_processing.md) * [References](/docs/background/references.md) * [Licensing](/docs/support/license.md) * [IT'IS TIP](/docs/support/itis/itis_tc.md) diff --git a/assets/methods/personalized_head.png b/assets/methods/personalized_head.png new file mode 100644 index 0000000..20557a8 Binary files /dev/null and b/assets/methods/personalized_head.png differ diff --git a/assets/quickguide/TIP_v3_files-DTI.png b/assets/quickguide/TIP_v3_files-DTI.png new file mode 100644 index 0000000..4a21f5f Binary files /dev/null and b/assets/quickguide/TIP_v3_files-DTI.png differ diff --git a/assets/quickguide/TIP_v3_files-MRI.png b/assets/quickguide/TIP_v3_files-MRI.png new file mode 100644 index 0000000..a87996b Binary files /dev/null and b/assets/quickguide/TIP_v3_files-MRI.png differ diff --git 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a/docs/background/electromagnetic_modeling.md b/docs/background/electromagnetic_modeling.md index 0b1bbb0..1f9366f 100644 --- a/docs/background/electromagnetic_modeling.md +++ b/docs/background/electromagnetic_modeling.md @@ -2,7 +2,9 @@ The TI exposure optimization and visualization is currently based on libraries of precomputed fields for rapid answers and an interactive experience. From the precomputed fields (and associated impedance matrices), distributions of TI, as well as high frequency exposure can be obtained for any stimulation configuration, using the superposition principle. -These precomputed fields were determined using the Sim4Life software, along with detailed anatomical models, such as the MIDA model [[1]](/docs/background/references.md), the Virtual Population (ViP) models [[2]](/docs/background/references.md), and the Virtual Zoo (ViZoo) models [[3]](/docs/background/references.md). The simulations were performed using the ohmic-current-dominated electro-quasistatic simulator that solves the equation +These precomputed fields were determined using the Sim4Life software, along with detailed anatomical models, such as the MIDA model [[1]](/docs/background/references.md), the Virtual Population (ViP) models [[2]](/docs/background/references.md), and the Virtual Zoo (ViZoo) models [[3]](/docs/background/references.md). The personalized flavor allows for the computation of all electrode fields based on the desired dataset. + +The simulations were performed using the ohmic-current-dominated electro-quasistatic simulator that solves the equation

∇σ∇ϕ = 0 diff --git a/docs/background/electromagnetic_modeling/quantities_of_interest.md b/docs/background/electromagnetic_modeling/quantities_of_interest.md index 965d2fe..45b39c8 100644 --- a/docs/background/electromagnetic_modeling/quantities_of_interest.md +++ b/docs/background/electromagnetic_modeling/quantities_of_interest.md @@ -6,7 +6,7 @@ For classic TI (two channels), the total field is obtained as:

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-where are the fields of the two channels and ω1,2 are their angular frequencies (initial phases are set to zero without loss of generality). Its projection along a direction of interest (e.g., the principal axis of a pyramidal neuron, or the principal axis of the local diffusion tensor; ) is obtained as: +where are the fields of the two channels and ω1,2 are their angular frequencies (initial phases are set to zero without loss of generality). Its projection along a direction of interest (e.g., the principal axis of a pyramidal neuron, or the principal axis of the local diffusion tensor; ) is obtained as:

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-The modulation envelope magnitude (MEM) along can easily be obtained as +The modulation envelope magnitude (MEM) along can easily be obtained as

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-where α denotes the angle between . This metric has been chosen because it reproduces empirical observations, such as the neurons responding to the demodulated exposure and stimulation target moving towards the channel carrying less current when the current ratio is adapted. +where α denotes the angle between . This metric has been chosen because it reproduces empirical observations, such as the neurons responding to the demodulated exposure and stimulation target moving towards the channel carrying less current when the current ratio is adapted. To assess the quality of a TI exposure condition, three key metrics have been defined: @@ -68,7 +68,7 @@ Typically, it is not possible to find exposure conditions that simultaneously op In addition to the TI-relevant MEM distribution, **high-frequency** exposure can also be of interest (e.g., to analyze potential high frequency stimulation or conduction blocking). For this, the peak field magnitude is used, which is obtained as:

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