diff --git a/README.rst b/README.rst index da64636d..908ed43c 100644 --- a/README.rst +++ b/README.rst @@ -49,6 +49,7 @@ for processing and preparing the AHBA microarray expression data for analysis. Installation requirements ------------------------- + Currently, ``abagen`` works with Python 3.6+ and requires a few dependencies: - nibabel @@ -80,8 +81,7 @@ At it's core, using ``abagen`` is as simple as: >>> import abagen >>> expression = abagen.get_expression_data('myatlas.nii.gz') -where ``'myatlas.nii.gz'`` points to a Nifti file that defines a brain -parcellation in MNI space. +where ``'myatlas.nii.gz'`` points to a brain parcellation file. This function can also be called from the command line with: @@ -131,9 +131,7 @@ Reannotated gene information located at ``abagen/data/reannotated.csv.gz`` and individualized donor parcellations for the Desikan-Killiany atlas located at ``abagen/data/native_dk`` are taken from Arnatkevičiūte et al., 2018 and are separately licensed under the `CC BY 4.0`_; these data can also be found on -`figshare `__. Individualized -parcellations have been renumbered to match the MNI-space atlas originally -shipped with ``abagen``. +`figshare `__. Corrected MNI coordinates used to match AHBA tissues samples to MNI space located at ``abagen/data/corrected_mni_coordinates.csv`` are taken from the diff --git a/abagen/info.py b/abagen/info.py index bbe2ef80..13cddcdc 100644 --- a/abagen/info.py +++ b/abagen/info.py @@ -52,6 +52,7 @@ Installation requirements ------------------------- + Currently, ``abagen`` works with Python 3.6+ and requires a few dependencies: - nibabel @@ -83,8 +84,7 @@ >>> import abagen >>> expression = abagen.get_expression_data('myatlas.nii.gz') # doctest: +SKIP -where ``'myatlas.nii.gz'`` points to a Nifti file that defines a brain -parcellation in MNI space. +where ``'myatlas.nii.gz'`` points to a brain parcellation file. This function can also be called from the command line with: @@ -134,9 +134,7 @@ individualized donor parcellations for the Desikan-Killiany atlas located at ``abagen/data/native_dk`` are taken from Arnatkevičiūte et al., 2018 and are separately licensed under the `CC BY 4.0`_; these data can also be found on -`figshare `__. Individualized -parcellations have been renumbered to match the MNI-space atlas originally -shipped with ``abagen``. +`figshare `__. Corrected MNI coordinates used to match AHBA tissues samples to MNI space located at ``abagen/data/corrected_mni_coordinates.csv`` are taken from the