Welcome to the Neurosynth-Compose documentation.
+Here you will find how to use the website and
+explanations about the components used in the website.
Searching for studies will often be the first interaction with the site
+for you to find the initial corpus of studies you wish to go through, therefore
+having a precise and capable search engine is essential.
+You can search by study title, description (i.e., abstract), author and year.
+
Wanted
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get results from pubmed and import into neurostore if necessary
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search based on metadata
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get results by sample size, software used, etc.
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+{"config":{"lang":["en"],"separator":"[\\s\\-]+","pipeline":["stopWordFilter"]},"docs":[{"location":"","title":"Neurosynth-Compose Documentation","text":"
Welcome to the Neurosynth-Compose documentation. Here you will find how to use the website and explanations about the components used in the website.
Searching for studies will often be the first interaction with the site for you to find the initial corpus of studies you wish to go through, therefore having a precise and capable search engine is essential. You can search by study title, description (i.e., abstract), author and year.
If an existing studyset is close to what you want or provides a good starting point, you may clone the studyset. From there you can add additional studies or remove studies from the studyset. If you would like to change which analyses are included for analysis in the studyset, we recommend you use annotations instead.
Annotations serve three functions: 1. human-readable documentation (for example, following PRISMA) 2. Specifying co-variates to be used in the meta-analysis 3. Filtering Analyses for inclusion in the meta-analysis
Annotations can be thought of like an excel sheet, where the columns are variables serving one of the three functions above and each analysis has value for that variable. For example, an \"include\" column may have a value of \"True\" or \"False\" for each analysis indicating whether to include the analysis in the meta-analysis.
A study is a publishable unit of research containing neuroimaging data. The data can be represented as peak coordinates or the actual images. The study is connected to the original journal it was published in.
An analysis represents a single statistical contrast between any number of groups/conditions. The contents of an analysis include the terms applied to the groups/conditions and their respective weights in the contrast. An analysis also contains the results of the statistical contrast either with an image and/or a table indicating significant results
Dors is a first year graduate student assigned to get an overview of which brain regions are typically recruited during finger tapping. Dors recently heard about compose.neurosynth.org and decided to check the website out to see if it would be helpful for her work. Dors goes to the landing page and clicks on the right corner button to sign up and uses her google account. From there she clicks on the studies tab to search for \"finger tapping\".
A few studies show up from the search and she begins to read a few of the associated articles. If the study does indeed use a finger tapping task, she wants to keep track of those studies. To the left of the study there is a plus button. She clicks on the plus button and sees she can add the study to a \"study-set\". She names the studyset \"finger tapping\" and adds the selected study. When she is done reading and adding all relevant studies, she notices that the finger tapping task typically falls under three categories: 1) right handed index finger, 2) right handed multiple fingers, and 3) both hands.
Using this information, she views her studyset and adds an annotation with three columns, one for each type of finger tapping task: RH_index_finger, RH_multi_finger, and bimanual. For each analysis in each study, Dors reads the tables reporting the brain coordinates and marks the analysis as one of the three categories.
After marking each analysis, Dors proceeds to specify the meta-analysis. Clicking on the meta-analysis tab, she is supplied with a form asking her what type of meta-analysis to perform: Image-Based Meta-Analysis (IBMA) or Coordinate-Based Meta-Analysis (CBMA). Her studyset contains coordinates so Dors selects CBMA. Next, she specifies the desired CBMA algorithm: multi-level kernel density analysis (or MKDA). After that, she specifies the type of correction she wants to apply and then she's ready to run.
neurosynth-compose generates a unique id for the analysis and Dors follows the link to the google collab to run her analysis. She runs the cells in the notebook which uploads the results back to neurosynth-compose.
A studyset is a collection of studies and serves as the primary input
+to a meta-analysis.
+
Functions
+
If an existing studyset is close to what you want or provides a good starting
+point, you may clone the studyset.
+From there you can add additional studies or remove studies from the studyset.
+If you would like to change which analyses are included for analysis in the studyset,
+we recommend you use annotations instead.
+
Annotation
+
Overview
+
Annotations serve three functions:
+1. human-readable documentation (for example, following PRISMA)
+2. Specifying co-variates to be used in the meta-analysis
+3. Filtering Analyses for inclusion in the meta-analysis
+
Annotations can be thought of like an excel sheet, where
+the columns are variables serving one of the three functions above
+and each analysis has value for that variable.
+For example, an "include" column may have a value of "True" or "False"
+for each analysis indicating whether to include the analysis in the
+meta-analysis.
+
Functions
+
Annotations can also be cloned if you disagree with an existing annotation
+you do not own and want to edit it.
+
Study
+
Overview
+
A study is a publishable unit of research containing neuroimaging
+data.
+The data can be represented as peak coordinates or the actual images.
+The study is connected to the original journal it was published in.
+
Functions
+
Studies can be created, cloned, and edited to accommodate your needs for your meta-analysis
+
Analysis
+
Overview
+
An analysis represents a single statistical contrast between any number of groups/conditions.
+The contents of an analysis include the terms applied to the groups/conditions and their respective
+weights in the contrast.
+An analysis also contains the results of the statistical contrast either with an image and/or a table
+indicating significant results
+
Condition
+
Overview
+
A condition is term/word that represents a psychological (e.g., 2-back), physical (e.g., biking)
Dors is a first year graduate student assigned to get an overview of which brain regions are typically recruited
+during finger tapping.
+Dors recently heard about compose.neurosynth.org and decided to check the website out to see if it would be helpful
+for her work.
+Dors goes to the landing page and clicks on the right corner button to sign up and uses her google account.
+From there she clicks on the studies tab to search for "finger tapping".
+
A few studies show up from the search and she begins to read a few of the associated articles.
+If the study does indeed use a finger tapping task, she wants to keep track of those studies.
+To the left of the study there is a plus button.
+She clicks on the plus button and sees she can add the study to a "study-set".
+She names the studyset "finger tapping" and adds the selected study.
+When she is done reading and adding all relevant studies, she notices
+that the finger tapping task typically falls under three categories:
+1) right handed index finger,
+2) right handed multiple fingers, and
+3) both hands.
+
Using this information, she views her studyset and adds an annotation with three columns,
+one for each type of finger tapping task: RH_index_finger, RH_multi_finger, and bimanual.
+For each analysis in each study, Dors reads the tables reporting the brain coordinates
+and marks the analysis as one of the three categories.
+
After marking each analysis, Dors proceeds to specify the meta-analysis.
+Clicking on the meta-analysis tab, she is supplied with a form asking her
+what type of meta-analysis to perform: Image-Based Meta-Analysis (IBMA) or
+Coordinate-Based Meta-Analysis (CBMA).
+Her studyset contains coordinates so Dors selects CBMA.
+Next, she specifies the desired CBMA algorithm: multi-level kernel density analysis (or MKDA).
+After that, she specifies the type of correction she wants to apply and then she's ready to run.
+
neurosynth-compose generates a unique id for the analysis and Dors follows the link to the google collab
+to run her analysis.
+She runs the cells in the notebook which uploads the results back to neurosynth-compose.