CONP Portal | Dataset
MRI and unbiased averages of wild muskrats (Ondatra zibethicus) and red squirrels (Tamiasciurus hudsonicus)
Other Dates: | Date Created: 2020-02-25 21:12:57 -- Date Modified: 2021-02-04 16:53:38 |
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Description:
Preprocessed data from:
Amuno, S., Rudko, D.A., Gallino, D., Tuznik, M., Shekh, K., Kodzhahinchev, V., Niyogi, S., Chakravarty, M.M., Devenyi, G.A., 2020. Altered neurotransmission and neuroimaging biomarkers of chronic arsenic poisoning in wild muskrats (Ondatra zibethicus) and red squirrels (Tamiasciurus hudsonicus) breeding near the City of Yellowknife, Northwest Territories (Canada). Sci. Total Environ. 707, 135556. https://doi.org/10.1016/j.scitotenv.2019.135556
As well as averages and brain masks generated during DBM processing. Files in both MINC2 and NIFTI format.
Dataset README information
MRI and unbiased averages of wild muskrats (Ondatra zibethicus) and red squirrels (Tamiasciurus hudsonicus)
Crawled from Zenodo
Description
Preprocessed data from:
Amuno, S., Rudko, D.A., Gallino, D., Tuznik, M., Shekh, K., Kodzhahinchev, V., Niyogi, S., Chakravarty, M.M., Devenyi, G.A., 2020. Altered neurotransmission and neuroimaging biomarkers of chronic arsenic poisoning in wild muskrats (Ondatra zibethicus) and red squirrels (Tamiasciurus hudsonicus) breeding near the City of Yellowknife, Northwest Territories (Canada). Sci. Total Environ. 707, 135556. https://doi.org/10.1016/j.scitotenv.2019.135556
As well as averages and brain masks generated during DBM processing. Files in both MINC2 and NIFTI format.
The following instructions require a basic understanding of UNIX/LINUX command lines. Future portal functionality may include downloads directly from the web browser. Dataset download is currently enabled through DataLad.
Note: The conp-dataset
requires version >=0.12.5 of DataLad
and version >=8.20200309 of git-annex.
To install DataLad on your system, please refer to the install section of the DataLad Handbook (installation via miniconda is recommended in order to obtain the latest version of DataLad).
1) Initiate the CONP dataset
To initiate the CONP dataset (conp-dataset
), run the following
command in the directory where you want CONP datasets to be installed:
datalad install https://github.com/CONP-PCNO/conp-dataset.git
2) Install the MRI_and_unbiased_averages_of_wild_muskrats__Ondatra_zibethicus__and_red_squirrels__Tamiasciurus_hudsonicus_ dataset
To install the dataset, go into the created conp-dataset directory and run
datalad install
on the dataset MRI_and_unbiased_averages_of_wild_muskrats__Ondatra_zibethicus__and_red_squirrels__Tamiasciurus_hudsonicus_
:
cd conp-dataset
datalad install projects/MRI_and_unbiased_averages_of_wild_muskrats__Ondatra_zibethicus__and_red_squirrels__Tamiasciurus_hudsonicus_
3) Download the MRI_and_unbiased_averages_of_wild_muskrats__Ondatra_zibethicus__and_red_squirrels__Tamiasciurus_hudsonicus_ dataset
Now that the DataLad dataset has been installed, go into the dataset
directory under projects/MRI_and_unbiased_averages_of_wild_muskrats__Ondatra_zibethicus__and_red_squirrels__Tamiasciurus_hudsonicus_
.
cd projects/MRI_and_unbiased_averages_of_wild_muskrats__Ondatra_zibethicus__and_red_squirrels__Tamiasciurus_hudsonicus_
Note that files visible in the dataset are symlinks and will need to be
downloaded manually using the
datalad get
command in the dataset directory:
datalad get <filepath>
Note, if you run datalad get *
command, all the files present
in the dataset directory will be downloaded.