3D Slicer DICOM Mask Annotation

₹12500-37500 INR

Closed

Posted about 1 month ago

₹12500-37500 INR

Paid on delivery

I have a mixed set of CT and MRI DICOM studies that need to be fully segmented in 3D Slicer. The goal is to generate clean, voxel-accurate volumetric masks I can feed directly into my AI training pipeline, so consistency across cases is critical. The dataset covers three anatomical regions—brain, chest and abdomen—and I will supply them already grouped by body part. For each series I need a single multi-label mask (or separate binary masks if that is easier for you) exported in a format 3D Slicer handles natively such as NRRD or NIfTI, together with the corresponding DICOM header preserved. Please follow these guidelines: • Use 3D Slicer’s Segment Editor tools (e.g., Threshold, Grow from Seeds, Scissors) rather than external software so the project stays reproducible. • Keep label IDs identical across all volumes (e.g., 1 = brain tissue, 2 = CSF, 3 = lungs, etc.); I’ll share the exact label map at kickoff. • Masks must be watertight—no holes, no stray voxels—and aligned perfectly with the original image grid. • Deliver each case in its own folder: /Images (DICOM) and /Masks (NRRD or .[login to view URL]). When you reply, let me know your experience segmenting both CT and MRI in 3D Slicer, any automated tools or scripts you rely on, and a rough turnaround time per study (brain, chest, abdomen). I’m ready to start as soon as we agree on workflow.

Project ID: 40377120

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Active 1 mo ago

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4 freelancers are bidding on average ₹27,350 INR for this job

@vanhuy19892011

Hi Client, I’m Huy P., a specialist with 8 years of experience in medical image processing, DICOM workflows, and 3D Slicer segmentation for CT and MRI datasets. I understand your goal is to produce consistent, voxel-accurate, AI-ready 3D masks across brain, chest, and abdomen studies with strict label consistency and reproducibility. I will use only 3D Slicer native tools (Segment Editor: Threshold, Grow from Seeds, Paint, Scissors) to ensure fully reproducible results. Where needed, I can also use 3D Slicer Python scripting to standardize segmentation steps across cases. Each study will follow your label map exactly, ensuring identical label IDs across all volumes. I will deliver clean, watertight segmentations with no stray voxels, perfectly aligned to the original DICOM grid. Outputs will be exported as NRRD or NIfTI masks, with preserved DICOM metadata when required. Each case will be organized into /Images (DICOM) and /Masks folders for direct use in AI pipelines. I have experience with multi-organ CT and MRI segmentation projects where consistency across datasets was critical for training models. Turnaround depends on complexity, but I can estimate per brain, chest, and abdomen case once I review a sample. Ready to start immediately. Best regards, Huy P.

₹25,000 INR in 2 days

5.0

(1 review)

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@PetrusLubbe

‼️ONLY PAY WHEN YOU'RE 100% HAPPY‼️ I understand the need for perfectly consistent, voxel-accurate segmentations across brain, chest, and abdomen volumes—critical for feeding your AI pipeline. My approach uses 3D Slicer’s Segment Editor exclusively to ensure reproducibility, maintaining label IDs uniformly and producing watertight masks aligned with your original DICOM grids. I’ll organize outputs exactly as requested, preserving headers and exporting in NRRD or NIfTI. While new to Freelancer, I’ve segmented both CT and MRI sets off-platform, often using automation scripts to speed up turnaround without sacrificing detail. Let’s chat! Worst case, you get a free consultation and real insight. Regards Pietie Lubbe

₹28,150 INR in 30 days