diff --git a/docs/faq.rst b/docs/faq.rst new file mode 100644 index 000000000..a0112db48 --- /dev/null +++ b/docs/faq.rst @@ -0,0 +1,52 @@ +.. include:: links.rst + +########################## +Frequently Asked Questions +########################## + +.. contents:: Table of Contents + :local: + :depth: 1 + +************************************* +Should I use *XCP-D* for my analysis? +************************************* + +This is a complicated question. +*XCP-D* is designed for resting-state or pseudo-resting-state functional connectivity analyses. +It also produces a number of resting-state-specific derivatives, including ALFF and ReHo. + +If your goal is just to denoise your resting-state data, *XCP-D* may be overkill. +You can perform simple denoising with tools like Nilearn or FSL. + +*XCP-D* is not designed as a general-purpose postprocessing pipeline. +It is really only appropriate for certain analyses, +and other postprocessing/analysis tools are better suited for many types of data/analysis. + +*XCP-D* derivatives are not particularly useful for task-dependent functional connectivity analyses, +such as psychophysiological interactions (PPIs) or beta series analyses. +It is also not suitable for general task-based analyses, such as standard task GLMs, +as we recommend including nuisance regressors in the GLM step, +rather than denoising data prior to the GLM. + + +*************************************************** +How do you decide what steps to include in *XCP-D*? +*************************************************** + +We have tried to follow current best practices in the field for processing and denoising +resting-state data. +While there are always new methods being developed, we have limited *XCP-D* to methods that +have been validated and are commonly used in the field. +If there is a method you would like to see included in *XCP-D*, please open an issue on GitHub, +but please be aware that we may not be willing to include all methods. + + +******************************************************* +Can I use XCP-D on my data if it is not in BIDS format? +******************************************************* + +No. *XCP-D* is designed to work with BIDS-formatted data. +Since *XCP-D* uses preprocessed data (i.e., data from a BIDS Derivatives dataset) and +the BIDS Derivatives dataset structure is not finalized, we largely follow the conventions +of NiPreps BIDS apps (especially fMRIPrep) for the input data. diff --git a/docs/index.rst b/docs/index.rst index 484ede146..dc2222359 100644 --- a/docs/index.rst +++ b/docs/index.rst @@ -17,6 +17,7 @@ Contents usage workflows outputs + faq contributing api changes