Files in jdwor/LQT
Lesion Quantification Toolkit
.Rbuildignore
.gitignore
.travis.yml
DESCRIPTION
Example_Multi_Patient_Script.R
Example_Single_Patient_Script.R
LQT.Rproj
NAMESPACE
R/.DS_Store
R/compile_data.R
R/create_cfg_object.R
R/download_templates.R
R/get_atlas_sspl.R
R/get_parcel_atlas.R
R/get_parcel_cons.R
R/get_parcel_damage.R
R/get_parcel_discon.R
R/get_patient_sspl.R
R/get_tract_discon.R
R/n2ndis.R
R/ndis.R
R/p2pdis.R
R/p2pnet.R
R/pdam.R
R/pdis.R
R/plot_lqt_subject.R
R/tdis.R
R/util_get_coords.R
README.Rmd
README.md
ims/Example_Datasets.png
ims/Example_Figures.png
ims/icon256.png
inst/.DS_Store
inst/extdata/.DS_Store
inst/extdata/Example_Lesions/.DS_Store
inst/extdata/Example_Lesions/ExampleLesion1.nii.gz
inst/extdata/Example_Lesions/ExampleLesion2.nii.gz
inst/extdata/Example_Lesions/ExampleLesion3.nii.gz
inst/extdata/Example_Lesions/ExampleLesion4.nii.gz
inst/extdata/Example_Lesions/ExampleLesion5.nii.gz
inst/extdata/Example_Results/Subject1/Disconnection_Maps/Subject1_Yeo.100.7.tdi.nii.gz
inst/extdata/Example_Results/Subject1/Disconnection_Maps/Subject1_Yeo.100.7_percent_tdi.nii.gz
inst/extdata/Example_Results/Subject1/Parcel_Damage/Subject1_Yeo.100.7_percent_damage.csv
inst/extdata/Example_Results/Subject1/Parcel_Damage/Subject1_Yeo.100.7_percent_damage.nii.gz
inst/extdata/Example_Results/Subject1/Parcel_Disconnection/Subject1_Yeo.100.7.100Parcels7Networks.count.end.connectogram.txt
inst/extdata/Example_Results/Subject1/Parcel_Disconnection/Subject1_Yeo.100.7_disconnectivity.RData
inst/extdata/Example_Results/Subject1/Parcel_Disconnection/Subject1_Yeo.100.7_network_measures.RData
inst/extdata/Example_Results/Subject1/Parcel_Disconnection/Subject1_Yeo.100.7_percent_parcel_SDC.edge
inst/extdata/Example_Results/Subject1/Parcel_Disconnection/Subject1_Yeo.100.7_percent_parcel_SDC.node
inst/extdata/Example_Results/Subject1/Parcel_Disconnection/Subject1_Yeo.100.7_percent_parcel_mats.RData
inst/extdata/Example_Results/Subject1/Parcel_Disconnection/Subject1_Yeo.100.7_percent_parcel_spared_SC.edge
inst/extdata/Example_Results/Subject1/Parcel_Disconnection/Subject1_Yeo.100.7_percent_parcel_spared_SC.node
inst/extdata/Example_Results/Subject1/Parcel_SSPL/Subject1_Yeo.100.7_SSPL_matrices.RData
inst/extdata/Example_Results/Subject1/Parcel_SSPL/Subject1_Yeo.100.7_delta_SSPL.edge
inst/extdata/Example_Results/Subject1/Parcel_SSPL/Subject1_Yeo.100.7_delta_SSPL.node
inst/extdata/Example_Results/Subject1/Parcel_SSPL/Subject1_Yeo.100.7_indirect_SDC.node
inst/extdata/Example_Results/Subject1/Parcel_SSPL/Subject1_Yeo.100.7_indirect_SDC_edge
inst/extdata/Example_Results/Subject1/Subject1_lesion.nii.gz
inst/extdata/Example_Results/Subject1/Tract_Disconnection/Subject1_percent_discon_tracts.csv
inst/extdata/Example_Results/Subject1/Tract_Disconnection/Subject1_percent_discon_tracts_orig.csv
inst/extdata/Example_Results/Subject2/Disconnection_Maps/Subject2_Yeo.100.7.tdi.nii.gz
inst/extdata/Example_Results/Subject2/Disconnection_Maps/Subject2_Yeo.100.7_percent_tdi.nii.gz
inst/extdata/Example_Results/Subject2/Parcel_Damage/Subject2_Yeo.100.7_percent_damage.csv
inst/extdata/Example_Results/Subject2/Parcel_Damage/Subject2_Yeo.100.7_percent_damage.nii.gz
inst/extdata/Example_Results/Subject2/Parcel_Disconnection/Subject2_Yeo.100.7.100Parcels7Networks.count.end.connectogram.txt
inst/extdata/Example_Results/Subject2/Parcel_Disconnection/Subject2_Yeo.100.7_disconnectivity.RData
inst/extdata/Example_Results/Subject2/Parcel_Disconnection/Subject2_Yeo.100.7_network_measures.RData
inst/extdata/Example_Results/Subject2/Parcel_Disconnection/Subject2_Yeo.100.7_percent_parcel_SDC.edge
inst/extdata/Example_Results/Subject2/Parcel_Disconnection/Subject2_Yeo.100.7_percent_parcel_SDC.node
inst/extdata/Example_Results/Subject2/Parcel_Disconnection/Subject2_Yeo.100.7_percent_parcel_mats.RData
inst/extdata/Example_Results/Subject2/Parcel_Disconnection/Subject2_Yeo.100.7_percent_parcel_spared_SC.edge
inst/extdata/Example_Results/Subject2/Parcel_Disconnection/Subject2_Yeo.100.7_percent_parcel_spared_SC.node
inst/extdata/Example_Results/Subject2/Parcel_SSPL/Subject2_Yeo.100.7_SSPL_matrices.RData
inst/extdata/Example_Results/Subject2/Parcel_SSPL/Subject2_Yeo.100.7_delta_SSPL.edge
inst/extdata/Example_Results/Subject2/Parcel_SSPL/Subject2_Yeo.100.7_delta_SSPL.node
inst/extdata/Example_Results/Subject2/Parcel_SSPL/Subject2_Yeo.100.7_indirect_SDC.node
inst/extdata/Example_Results/Subject2/Parcel_SSPL/Subject2_Yeo.100.7_indirect_SDC_edge
inst/extdata/Example_Results/Subject2/Subject2_lesion.nii.gz
inst/extdata/Example_Results/Subject2/Tract_Disconnection/Subject2_percent_discon_tracts.csv
inst/extdata/Example_Results/Subject3/Disconnection_Maps/Subject3_Yeo.100.7.tdi.nii.gz
inst/extdata/Example_Results/Subject3/Disconnection_Maps/Subject3_Yeo.100.7_percent_tdi.nii.gz
inst/extdata/Example_Results/Subject3/Parcel_Damage/Subject3_Yeo.100.7_percent_damage.csv
inst/extdata/Example_Results/Subject3/Parcel_Damage/Subject3_Yeo.100.7_percent_damage.nii.gz
inst/extdata/Example_Results/Subject3/Parcel_Disconnection/Subject3_Yeo.100.7.100Parcels7Networks.count.end.connectogram.txt
inst/extdata/Example_Results/Subject3/Parcel_Disconnection/Subject3_Yeo.100.7_disconnectivity.RData
inst/extdata/Example_Results/Subject3/Parcel_Disconnection/Subject3_Yeo.100.7_network_measures.RData
inst/extdata/Example_Results/Subject3/Parcel_Disconnection/Subject3_Yeo.100.7_percent_parcel_SDC.edge
inst/extdata/Example_Results/Subject3/Parcel_Disconnection/Subject3_Yeo.100.7_percent_parcel_SDC.node
inst/extdata/Example_Results/Subject3/Parcel_Disconnection/Subject3_Yeo.100.7_percent_parcel_mats.RData
inst/extdata/Example_Results/Subject3/Parcel_Disconnection/Subject3_Yeo.100.7_percent_parcel_spared_SC.edge
inst/extdata/Example_Results/Subject3/Parcel_Disconnection/Subject3_Yeo.100.7_percent_parcel_spared_SC.node
inst/extdata/Example_Results/Subject3/Parcel_SSPL/Subject3_Yeo.100.7_SSPL_matrices.RData
inst/extdata/Example_Results/Subject3/Parcel_SSPL/Subject3_Yeo.100.7_delta_SSPL.edge
inst/extdata/Example_Results/Subject3/Parcel_SSPL/Subject3_Yeo.100.7_delta_SSPL.node
inst/extdata/Example_Results/Subject3/Parcel_SSPL/Subject3_Yeo.100.7_indirect_SDC.node
inst/extdata/Example_Results/Subject3/Parcel_SSPL/Subject3_Yeo.100.7_indirect_SDC_edge
inst/extdata/Example_Results/Subject3/Subject3_lesion.nii.gz
inst/extdata/Example_Results/Subject3/Tract_Disconnection/Subject3_percent_discon_tracts.csv
inst/extdata/Example_Results/Subject4/Disconnection_Maps/Subject4_Yeo.100.7.tdi.nii.gz
inst/extdata/Example_Results/Subject4/Disconnection_Maps/Subject4_Yeo.100.7_percent_tdi.nii.gz
inst/extdata/Example_Results/Subject4/Parcel_Damage/Subject4_Yeo.100.7_percent_damage.csv
inst/extdata/Example_Results/Subject4/Parcel_Damage/Subject4_Yeo.100.7_percent_damage.nii.gz
inst/extdata/Example_Results/Subject4/Parcel_Disconnection/Subject4_Yeo.100.7.100Parcels7Networks.count.end.connectogram.txt
inst/extdata/Example_Results/Subject4/Parcel_Disconnection/Subject4_Yeo.100.7_disconnectivity.RData
inst/extdata/Example_Results/Subject4/Parcel_Disconnection/Subject4_Yeo.100.7_network_measures.RData
inst/extdata/Example_Results/Subject4/Parcel_Disconnection/Subject4_Yeo.100.7_percent_parcel_SDC.edge
inst/extdata/Example_Results/Subject4/Parcel_Disconnection/Subject4_Yeo.100.7_percent_parcel_SDC.node
inst/extdata/Example_Results/Subject4/Parcel_Disconnection/Subject4_Yeo.100.7_percent_parcel_mats.RData
inst/extdata/Example_Results/Subject4/Parcel_Disconnection/Subject4_Yeo.100.7_percent_parcel_spared_SC.edge
inst/extdata/Example_Results/Subject4/Parcel_Disconnection/Subject4_Yeo.100.7_percent_parcel_spared_SC.node
inst/extdata/Example_Results/Subject4/Parcel_SSPL/Subject4_Yeo.100.7_SSPL_matrices.RData
inst/extdata/Example_Results/Subject4/Parcel_SSPL/Subject4_Yeo.100.7_delta_SSPL.edge
inst/extdata/Example_Results/Subject4/Parcel_SSPL/Subject4_Yeo.100.7_delta_SSPL.node
inst/extdata/Example_Results/Subject4/Parcel_SSPL/Subject4_Yeo.100.7_indirect_SDC.node
inst/extdata/Example_Results/Subject4/Parcel_SSPL/Subject4_Yeo.100.7_indirect_SDC_edge
inst/extdata/Example_Results/Subject4/Subject4_lesion.nii.gz
inst/extdata/Example_Results/Subject4/Tract_Disconnection/Subject4_percent_discon_tracts.csv
inst/extdata/Example_Results/Subject5/Disconnection_Maps/Subject5_Yeo.100.7.tdi.nii.gz
inst/extdata/Example_Results/Subject5/Disconnection_Maps/Subject5_Yeo.100.7_percent_tdi.nii.gz
inst/extdata/Example_Results/Subject5/Parcel_Damage/Subject5_Yeo.100.7_percent_damage.csv
inst/extdata/Example_Results/Subject5/Parcel_Damage/Subject5_Yeo.100.7_percent_damage.nii.gz
inst/extdata/Example_Results/Subject5/Parcel_Disconnection/Subject5_Yeo.100.7.100Parcels7Networks.count.end.connectogram.txt
inst/extdata/Example_Results/Subject5/Parcel_Disconnection/Subject5_Yeo.100.7_disconnectivity.RData
inst/extdata/Example_Results/Subject5/Parcel_Disconnection/Subject5_Yeo.100.7_network_measures.RData
inst/extdata/Example_Results/Subject5/Parcel_Disconnection/Subject5_Yeo.100.7_percent_parcel_SDC.edge
inst/extdata/Example_Results/Subject5/Parcel_Disconnection/Subject5_Yeo.100.7_percent_parcel_SDC.node
inst/extdata/Example_Results/Subject5/Parcel_Disconnection/Subject5_Yeo.100.7_percent_parcel_mats.RData
inst/extdata/Example_Results/Subject5/Parcel_Disconnection/Subject5_Yeo.100.7_percent_parcel_spared_SC.edge
inst/extdata/Example_Results/Subject5/Parcel_Disconnection/Subject5_Yeo.100.7_percent_parcel_spared_SC.node
inst/extdata/Example_Results/Subject5/Parcel_SSPL/Subject5_Yeo.100.7_SSPL_matrices.RData
inst/extdata/Example_Results/Subject5/Parcel_SSPL/Subject5_Yeo.100.7_delta_SSPL.edge
inst/extdata/Example_Results/Subject5/Parcel_SSPL/Subject5_Yeo.100.7_delta_SSPL.node
inst/extdata/Example_Results/Subject5/Parcel_SSPL/Subject5_Yeo.100.7_indirect_SDC.node
inst/extdata/Example_Results/Subject5/Parcel_SSPL/Subject5_Yeo.100.7_indirect_SDC_edge
inst/extdata/Example_Results/Subject5/Subject5_lesion.nii.gz
inst/extdata/Example_Results/Subject5/Tract_Disconnection/Subject5_percent_discon_tracts.csv
man/.DS_Store
man/compile_data.Rd
man/create_cfg_object.Rd
man/get_atlas_sspl.Rd
man/get_parcel_atlas.Rd
man/get_parcel_cons.Rd
man/get_parcel_damage.Rd
man/get_parcel_discon.Rd
man/get_patient_sspl.Rd
man/get_tract_discon.Rd
man/plot_lqt_subject.Rd
