MCX Download & Registration

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We thank you for downloading MCX software packages.

In order to proceed with your download, the author of MCX/MMC, Dr. Qianqian Fang would like to invite you to fill out a brief survey related to the free data resources at NeuroJSON.io (https://neurojson.io) - starting from MCX/MMC v2025, we have started integrating NeuroJSON datasets with MCX. Your inputs will help guide us further improve this integration between MCX and NeuroJSON resources.

Several datasets of online MCX simulations are being accumulated on NeuroJSON.io

https://neurojson.org/db/mcx (access using mcx -N)
https://neurojson.org/db/mmc (access using mmc -N)
https://neurojson.org/db/cotilab/MCX_DL_Denoiser_2022 (a library of 7500 MCX simulations of random domains for DL training)

This survey will only take a few minutes of your time. It will offer crucial community feedback that can help prioritize our resources in the next stages. We appreciate your time. Only summaries of this survey will be shared to our funding agency (NIH).

Data query parameters

Direct Link to the query

Validation

This will update whenever the form changes to show validation errors if any.

Schema

{
  "title": "MCX Software Registration",
  "type": "object",
  "required": [
    "basic",
    "questions"
  ],
  "properties": {
    "basic": {
      "type": "object",
      "title": "Basic Information",
      "required": [
        "name",
        "title",
        "inst",
        "email",
        "research"
      ],
      "properties": {
        "name": {
          "title": "Your full name",
          "type": "string",
          "minLength": 2
        },
        "title": {
          "title": "Your current position",
          "type": "string",
          "format": "radio",
          "enum": [
            "MS student",
            "Undergraduate student",
            "PhD student",
            "Postdoctoral fellow",
            "Faculty or Principal Investigator",
            "Researcher/employee of a company",
            "Private"
          ],
          "default": "",
          "minLength": 2
        },
        "inst": {
          "title": "Your institute/company (please provide full name, no acronym), and country",
          "type": "string",
          "minLength": 2
        },
        "email": {
          "title": "Your work email address",
          "type": "string",
          "pattern": "[a-z0-9._%+-]+@[a-z0-9.-]+\\.[a-z]{2,}$",
          "format": "email",
          "description": "Please verify your email address. It may be used in the future to provide storage/computing credits.",
          "minLength": 6,
          "maxLength": 127
        },
        "research": {
          "title": "Check all research areas that are related to your work (at least 1)",
          "type": "array",
          "format": "checkbox",
          "uniqueItems": true,
          "minItems": 1,
          "items": {
            "type": "string",
            "enum": [
              "Imaging",
              "MRI/fMRI",
              "EEG/iEEG",
              "MEG",
              "fNIRS",
              "Neuroscience",
              "Biophotonics",
              "Spectroscopy",
              "Diffuse optics",
              "Microscopy",
              "Photoacoustics",
              "Modeling",
              "Image processing",
              "AI",
              "Data science",
              "Clinical",
              "Other (use the Additional Comments box below)"
            ]
          }
        },
        "subscribe": {
          "title": "Please check this checkbox to be informed for any future critical bug fixes and major releases",
          "type": "boolean",
          "default": true,
          "description": "Note: your registered email will be added to an announcement-only mailing list: mcx-news (at) listserv.neu.edu; only a few announcements a year are expected. You can unsubscribe at any time."
        }
      }
    },
    "questions": {
      "type": "object",
      "title": "Registration survey",
      "required": [
        "Q1",
        "Q2",
        "Q3",
        "Q4",
        "Q5",
        "Q6",
        "Q7",
        "Q8",
        "Q9",
        "Q10",
        "comment"
      ],
      "properties": {
        "Q1": {
          "title": "1/10: Please check the software package you want to register (check all that apply)",
          "type": "array",
          "format": "checkbox",
          "uniqueItems": true,
          "minItems": 1,
          "items": {
            "type": "string",
            "enum": [
              "MCX",
              "MCXCL",
              "MMC",
              "MCXLAB",
              "MCXLABCL",
              "MMCLAB",
              "pmcx",
              "pmcxcl",
              "MCXStudio",
              "JSONLab(MATLAB)",
              "Iso2Mesh(MATLAB)",
              "ZMat(MATLAB)",
              "EasyH5(MATLAB)",
              "JNIFTY(MATLAB)",
              "JSNIRFY(MATLAB)",
              "jbids(MATLAB)",
              "jdata(Python)",
              "bjdata(Python)",
              "neuroj(shell)",
              "None of above"
            ]
          }
        },
        "Q2": {
          "title": "2/10: Describe your experience with our data portal at https://neurojson.io",
          "type": "string",
          "format": "radio",
          "minLength": 1,
          "enum": [
            "Have browsed and downloaded datasets",
            "Only browsed the website, but did not download",
            "Only heard of, but never used",
            "Never heard of before"
          ],
          "default": ""
        },
        "Q3": {
          "title": "3/10: What would you like to see in order to better use our resources at NeuroJSON.io? (check all that apply)",
          "type": "array",
          "uniqueItems": true,
          "minItems": 1,
          "items": {
            "type": "string",
            "enum": [
              "A journal paper describing the key technical details of the platform",
              "Video tutorials on how to navigate, query and download datasets",
              "Detailed documentations",
              "More community engagement via emails, mailing lists, forums",
              "Workshops and training events at conferences",
              "Other (use the Additional Comments box below)"
            ]
          }
        },
        "Q4": {
          "title": "4/10: How strong do you agree with the below statements? (10 means strongly agree, 1 means strongly disagree)",
          "type": "object",
          "required": [
            "1",
            "2",
            "3",
            "4",
            "5"
          ],
          "properties": {
            "1": {
              "title": "We need reliable data hosting services to share our data for publications",
              "type": "integer",
              "format": "rating",
              "default": -1,
              "minimum": 0,
              "maximum": "10"
            },
            "2": {
              "title": "We need detailed annotations for all shared public datasets in order to reuse them",
              "type": "integer",
              "format": "rating",
              "default": -1,
              "minimum": 0,
              "maximum": "10"
            },
            "3": {
              "title": "We need efficient data search tools to identify public data that are relevant before downloading",
              "type": "integer",
              "format": "rating",
              "default": -1,
              "minimum": 0,
              "maximum": "10"
            },
            "4": {
              "title": "We need native software (not web-based) to help organize lab's internal datasets",
              "type": "integer",
              "default": -1,
              "minimum": 0,
              "format": "rating",
              "maximum": "10"
            },
            "5": {
              "title": "We rarely share our data or use others' datasets in our research",
              "type": "integer",
              "default": -1,
              "minimum": 0,
              "format": "rating",
              "maximum": "10"
            }
          }
        },
        "Q5": {
          "title": "5/10: What do you see as the biggest barriers to share your lab's datasets? (min length: 10 characters)",
          "type": "string",
          "format": "textarea",
          "minLength": 10
        },
        "Q6": {
          "title": "6/10: What do you see as the biggest barriers when reusing existing public data? (min length: 10 characters)",
          "type": "string",
          "format": "textarea",
          "minLength": 10
        },
        "Q7": {
          "title": "7/10: What are the primary software environments in which you run data analysis?",
          "type": "string",
          "format": "radio",
          "enum": [
            "MATLAB",
            "Python",
            "Commercial software",
            "Clusters or cloud computing"
          ],
          "default": ""
        },
        "Q8": {
          "title": "8/10: Please rank the following wanted features from the most useful to least useful (press Ctrl+drag/drop to reorder)",
          "type": "array",
          "uniqueItems": true,
          "format": "table",
          "minItems": 7,
          "maxItems": 7,
          "items": {
            "type": "string"
          },
          "default": [
            "Users can upload new data",
            "Users can list/download data in MATLAB or Python",
            "More datasets",
            "Enhanced search capability",
            "More biophotonics datasets",
            "Harmonize data to facilitate search",
            "Allow to run analyses using NeuroJSON data"
          ]
        },
        "Q9": {
          "title": "9/10: What do you think the MCX/NeuroJSON team should do more? rank from most important to least (press Ctrl+drag/drop to reorder)",
          "type": "array",
          "uniqueItems": true,
          "format": "table",
          "minItems": 7,
          "maxItems": 7,
          "items": {
            "type": "string"
          },
          "default": [
            "Increase awareness by advertising among users",
            "More integration with established projects, such as OpenNeuro/Brainlife.io",
            "Increase the amount and diversity of datasets",
            "Provide free cloud-computing capabilities",
            "More training events, better documentation",
            "Build an active user community",
            "Increase collaboration with research projects where accessing large datasets is crucial"
          ]
        },
        "Q10": {
          "title": "10/10: Which of the following deserves the most prominent space on the NeuroJSON.io's landing page?",
          "type": "string",
          "format": "radio",
          "minLength": 1,
          "enum": [
            "A big search box (like Google)",
            "A graphical rendering of all databases/datasets (current)",
            "A table/list of all databases/datasets",
            "A summary on the mission/architecture of NeuroJSON",
            "Latest updates on datasets and/or forum posts",
            "Other (use the Additional Comments box below)"
          ],
          "default": ""
        },
        "comment": {
          "title": "Any additional comments",
          "type": "string",
          "format": "textarea"
        }
      }
    }
  }
}