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docs/introduction/ecosystem.md

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@@ -20,34 +20,34 @@ large scale meta-analysis to provide new insights into the literature, overcomin
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with sheer scale. With regular updates, Neurosynth was able to keep up with the growth of the literature.
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The database was released with a permissive license, and accompanied by a Python package to manipulate and analyze it.
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Although this approach was surprsingly successful, there were several major limitations to Neurosynth 1.0:
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Although this approach was surprisingly successful, there were several major limitations to Neurosynth 1.0:
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* Meta-analyses were limited by **concepts that can be inferred from large scale text mining** (i.e. frequency of terms in the text).
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Although these features proved to be surprsingly useful for well-powered and broad cognitive constructs (e.g. 'emotion'), Neurosynth was not able
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Although these features proved to be surprisingly useful for well-powered and broad cognitive constructs (e.g. 'emotion'), Neurosynth was not able
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to capture the fine-grained details of the neuroimaging literature, or allow users to define their own grouping of studies.
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* The database is not curated, and therefore contains many **inaccuracies and incomplete** data at both the study and coordinate level.
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Aside from obvious extraction erors, automated coordinate extraction lacks the ability to determine critical information, such as whether the activation is positive or negative.
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Aside from obvious extraction errors, automated coordinate extraction lacks the ability to determine critical information, such as whether the activation is positive or negative.
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In addition, it's not possible to segregate the coordinates into distinct contrast, conditions, or studies without manual curation.
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* Coordinate-based analyses are inherently **inferior to image-based** meta-analysis, which is becoming increasingly possible with sharing of unthresholded statisical maps in repositories like [NeuroVault][].
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* Coordinate-based analyses are inherently **inferior to image-based** meta-analysis, which is becoming increasingly possible with sharing of unthresholded statistical maps in repositories like [NeuroVault][].
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_Neurosynth Compose_ aims to address these limitations:
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* Provides a web-based platform for meta-analytic neuroimaging research, allowing users to **curate studies**, and **specify meta-analytic models**.
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* **Flexible and easy to use**, allowing users to perform both large-scale **exploratory** meta-analyses, as well as **targeted, hypothesis-driven** meta-analyses that conform to stringent standards such as the [PRISMA][https://prisma-statement.org] statement.
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* **Flexible and easy to use**, allowing users to perform both large-scale **exploratory** meta-analyses, as well as **targeted, hypothesis-driven** meta-analyses that conform to stringent standards such as the [PRISMA][] statement.
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* Allows users to perfom **image-based meta-analysis** using unthresholded images from NeuroVault (in progress).
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* Quick, reproducible and transparent **sharing of results**.
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* Incentivizes **collaborative curation** of neuroimaging studies in a accesible **centralized repository** (NeuroStore, see below).
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* Incentivizes **collaborative curation** of neuroimaging studies in a accessible **centralized repository** (NeuroStore, see below).
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## NeuroStore
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NeuroStore is the centralized repository for neuroimaging data amenable to meta-analysis, including coordinates, images, and metadata.
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[NeuroStore][] is the centralized repository for neuroimaging data amenable to meta-analysis, including coordinates, images, and metadata.
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NeuroStore serves as the data backend for Neurosynth Compose, but is also designed to be a standalone interoperable resource for the neuroimaging community.
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NeuroStore ingests data from a number of sources, including NeuroVault, NeuroQuery, and Neurosynth (ACE), and provides a unified API for querying the database.
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[NeuroQuery][] is a web service, Python library, and coordinate database built for large-scale, predictive meta-analysis.
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Predictive meta-analysis generates non-statistical brain maps from text, using a database of coordinates and associated texts.
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The [NeuroQuery dataset][] is accurate and maintainble than the existing Neurosynth 1.0 database,
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The [NeuroQuery dataset][] is accurate and maintainable than the existing Neurosynth 1.0 database,
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this new database will effectively replace the old one within the meta-analytic ecosystem.
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NiMARE can ingest the NeuroQuery database and convert it automatically to a NiMARE Dataset object for analysis.
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Additionally, the NeuroQuery database will feed directly into NeuroStore as a source of coordinates.
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[Nistats]: https://nistats.github.io/
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[OpenNeuro]: https://openneuro.org
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[peaks2maps]: https://doi.org/10.7490/f1000research.1116395.1
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[PRISMA]: https://prisma-statement.org
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[PyMARE]: https://pymare.readthedocs.io/en/latest/
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[scikit-learn]: https://scikit-learn.org/stable/developers/index.html
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[Sleuth]: http://www.brainmap.org/software.html#Sleuth

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