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fsbrain
Managing and Visualizing Brain Surface Data
View on CRAN: Click
here
Download and install fsbrain package within the R console
Install from CRAN:
install.packages("fsbrain")
Install from Github:
library("remotes")
install_github("cran/fsbrain") Install by package version:
library("remotes")
install_version("fsbrain", "0.5.5") Attach the package and use:
library("fsbrain")
Maintained by
Tim Schäfer
[Scholar Profile | Author Map]
[Scholar Profile | Author Map]
All associated links for this package
10.32614/CRAN.package.fsbrain . https://github.com/dfsp-spirit/fsbrain/issues . https://github.com/dfsp-spirit/fsbrain . fsbrain citation info . fsbrain results . fsbrain.pdf . fsbrain: Managing and Visualizing Structural Neuroimaging Data in GNU R . The fsbrain FAQ . Brain volume visualization with fsbrain . fsbrain_0.5.5.tar.gz . fsbrain_0.5.5.zip . fsbrain_0.5.5.zip . fsbrain_0.5.5.zip . fsbrain_0.5.5.tgz . fsbrain_0.5.5.tgz . fsbrain_0.5.5.tgz . fsbrain_0.5.5.tgz . fsbrain_0.5.5.tgz . fsbrain_0.5.5.tgz . fsbrain archive . https://CRAN.R-project.org/package=fsbrain .
First Published: 2019-10-30
Latest Update: 2023-06-26
Description:
Provides high-level access to neuroimaging data from standard software packages like 'FreeSurfer' on the level of subjects and groups. Load morphometry data, surfaces and brain parcellations based on atlases. Mask data using labels, load data for specific atlas regions only, and visualize data and statistical results directly in 'R'.
How to cite:
Tim Schäfer (2019). fsbrain: Managing and Visualizing Brain Surface Data. R package version 0.5.5, https://cran.r-project.org/web/packages/fsbrain. Accessed 01 Apr. 2025.
Previous versions and publish date:
0.0.1 (2019-10-30 18:00), 0.0.2 (2019-11-08 15:10), 0.0.3 (2019-12-01 22:20), 0.1.0 (2020-04-15 23:00), 0.2.0 (2020-05-15 19:20), 0.2.1 (2020-05-27 17:50), 0.3.0 (2020-06-21 06:30), 0.4.0 (2020-09-10 20:50), 0.4.1 (2021-01-20 14:50), 0.4.2 (2021-03-28 20:50), 0.4.3 (2021-05-12 17:40), 0.5.0 (2021-11-10 12:23), 0.5.1 (2021-11-09 17:50), 0.5.2 (2021-11-11 00:20), 0.5.3 (2022-02-12 20:00), 0.5.4 (2023-06-26 20:20)
Other packages that cited fsbrain R package
View fsbrain citation profile
Other R packages that fsbrain depends,
imports, suggests or enhances
Complete documentation for fsbrain
Functions, R codes and Examples using
the fsbrain R package
Some associated functions: alphablend . annot.outline.border.vertices . annot.outline . apply.label.to.morphdata . apply.labeldata.to.morphdata . apply.transform . arrange.brainview.images.grid . arrange.brainview.images . boxcoords.from.bbox . brain . brainview.sd . brainview.si . brainview.sr . brainview.t4 . brainview.t9 . brainviews . can.plot.colorbar.from.coloredmeshes . can.plot.colorbar . check.subjects.files . check.subjectslist . clip.data . clip_fun . cm.cbry . cm.div . cm.heat . cm.qual . cm.seq . collayer.bg.atlas . collayer.bg.meancurv . collayer.bg . collayer.bg.sulc . collayer.from.annot . collayer.from.annotdata . collayer.from.mask.data . collayer.from.morphlike.data . collayers.merge . coloredmesh.from.annot . coloredmesh.from.color . coloredmesh.from.label . coloredmesh.from.mask . coloredmesh.from.morph.native . coloredmesh.from.morph.standard . coloredmesh.from.morphdata . coloredmesh.from.preloaded.data . coloredmesh.plot.colorbar.separate . coloredmeshes.combined.data.range . coloredmeshes.from.color . coloredmeshes.get.md . colorlist.brain.clusters . colors.are.grayscale . colors.have.transparency . combine.colorbar.with.brainview.animation . combine.colorbar.with.brainview.image . combine.colorbar.with.brainview.image.vertical . common.makecmap.range . constant.pervertexdata . cube3D.tris . cubes3D.tris . deepcopylist.long . deg2rad . delete_all_optional_data . demo . demographics.to.fsgd.file . demographics.to.qdec.table.dat . desaturate . download_fsaverage . download_fsaverage3 . download_optional_data . download_optional_paper_data . draw.colorbar . eeg_coords . ensure.fs.surface . ensure.tmesh3d . export.coloredmesh.ply . export . extend_neighbors . extract.volume.3D . face.edges . find.freesurferhome . find.subjectsdir.of . flc . force.to.range . fs.coloredmesh . fs.home . fs.surface.as.adjacencylist . fs.surface.to.igraph . fs.surface.to.tmesh3d . fs.surface.vertex.neighbors . fs.value.list.from.agg.res . fsaverage.path . fsbrain.renderable . fsbrain.set.default.figsize . fslong.subjects.detect . fslong.subjects.finished . fup . gen.test.volume . geod.patches.color.overlay . geod.patches.color.overlay.singlehemi . geod.patches.pervertexdata . geod.patches.pervertexdata.singlehemi . geod.vert.neighborhood . geodesic.average.distance . geodesic.ballstats . geodesic.circles . geodesic.dists.to.vertex . geodesic.path . get.atlas.region.names . get.rglstyle.default . get.rglstyle.edges . get.rglstyle.glass . get.rglstyle.glass2 . get.rglstyle . get.rglstyle.parameters . get.rglstyle.semitransparent . get.rglstyle.shiny . get.slice.indices . get.subject.class . get.view.angle.names . getIn . get_optional_data_filepath . group.agg.atlas.native . group.agg.atlas.standard . group.annot . group.concat.measures.native . group.concat.measures.standard . group.data.to.array . group.label.from.annot . group.label . group.morph.agg.native . group.morph.agg.standard . group.morph.agg.standard.vertex . group.morph.native . group.morph.standard . group.morph.standard.sf . group.multimorph.agg.native . group.multimorph.agg.standard . group.surface . groupmorph.split.hemilist . handle.rglactions.highlight.points . hasIn . hemi.lobe.labels . hemilist.derive.hemi . hemilist.from.prefixed.list . hemilist.get.combined.data . hemilist . hemilist.unwrap . hemilist.wrap . hemlist.ensure.contains . highlight.points.spheres . highlight.vertices.on.subject . highlight.vertices.on.subject.spheres . highlight.vertices.spheres . hull.retain.along.axis . image.remap.color . images.annotate . images.dimmax . images.rescale.to.max.canvas . images.same.height . images.same.width . is.Triangles3D . is.fs.coloredmesh . is.fs.coloredvoxels . is.fsbrain . is.hemilist . label.border.fast . label.border . label.colFn.inv . label.colFn . label.from.annotdata . label.to.annot . labeldata.from.mask . limit_fun . limit_fun_na . limit_fun_na_inside . list_optional_data . magick.grid . mask.from.labeldata.for.hemi . mergehemi.annots . mesh.vertex.included.faces . mesh.vertex.neighbors . mkco.cluster . mkco.div . mkco.heat . mkco.seq . normalize . numverts.lh . numverts.rh . path.colors.from.orientation . path.slopes . per.hemi.vertex.indices . perform.na.mapping . perform.rglactions . pervertexdata.smoothgaussian . pervertexdata.smoothnn.compute.fwhm . pervertexdata.smoothnn.compute.numiter . pervertexdata.smoothnn . plot.fsbrain.colorbar . pp.named.list . principal.curvatures . print.fs.coloredmesh . print.fs.coloredvoxels . print.fsbrain . qc.for.group . qc.from.regionwise.df . qc.from.segstats.table . qc.from.segstats.tables . qc.fslong.checkidenticaldata . qc.report.html . qc.vis.failcount.by.region . qdec.table.filter . qdec.table.skeleton . rad2deg . ras2vox_tkr . read.colorcsv . read.md.demographics . read.md.subjects.from.fsgd . read.md.subjects . recycle . regions.to.ignore . report.on.demographics . rgl.coord.lines . rglactions.has.key . rglactions . rglactions.transform . rglo . rglot . rglvoxels . rotation.matrix.for.axis.rot . scale.to.range.zero.one . scale01 . shape.descriptor.names . shape.descriptors . shift.hemis.apart . shift.hemis.rglactions . sjd.demo . sjld . sortcoloredmeshes.by.hemi . sph2fs . spread.values.over.annot . spread.values.over.hemi . spread.values.over.subject . subject.annot.border . subject.annot . subject.atlas.agg . subject.descriptor.geodesic.average.distance . subject.filepath.any . subject.filepath.morph.native . subject.filepath.morph.standard . subject.label.from.annot . subject.label . subject.lobes . subject.mask . subject.morph.native . subject.morph.standard . subject.num.verts . subject.report.html . subject.surface . subject.volume . submesh.vertex . surf.avg.vertexradius . surf.center.fsaverage . surf.metric.properties . surf.radius.fsaverage . surf.sphere.dist . surf.sphere.gaussianweights . surf.sphere.spatialfilter . surface.curvatures . surfs.props . symmrange . test.numerical.meandiff . test.numerical.meandiff.paired . test.numerical.meandiff.unpaired . tmesh3d.to.fs.surface . track.length . vdata.split.by.hemi . vertex.coords . vertex.hemis . vis.color.on.subject . vis.coloredmesh . vis.coloredmeshes . vis.coloredmeshes.rotating . vis.colortable.legend . vis.data.on.fsaverage . vis.data.on.group.native . vis.data.on.group.standard . vis.data.on.subject . vis.dti.trk . vis.export.from.coloredmeshes . vis.fs.surface . vis.group.annot . vis.group.coloredmeshes . vis.group.morph.native . vis.group.morph.standard . vis.labeldata.on.subject . vis.mask.on.subject . vis.path.along.verts . vis.paths.along.verts . vis.paths . vis.region.values.on.subject . vis.renderable . vis.rotated.coloredmeshes . vis.seg.legend . vis.subject.annot . vis.subject.label . vis.subject.morph.native . vis.subject.morph.standard . vis.subject.pre . vis.symmetric.data.on.subject . vislayout.from.coloredmeshes . vol.boundary.box.apply . vol.boundary.box . vol.boundary.mask . vol.hull . vol.imagestack . vol.intensity.to.color . vol.mask.from.segmentation . vol.merge . vol.overlay.colors.from.activation . vol.overlay.colors.from.colortable . vol.plane.axes . vol.planes . vol.slice . vol.vox.from.crs . volvis.contour . volvis.lb . volvis.lightbox . volvis.voxels . vox2ras_tkr . wrapped.image.append . write.group.morph.standard.mf . write.group.morph.standard . write.group.morph.standard.sf . write.group.morph.standard.singlehemi . write.region.aggregated . write.region.values.fsaverage . write.region.values .
Some associated R codes: atlas.R . brain_igraph.R . brainview_magick.R . cbar.R . cbar_magick.R . coloredmesh.R . curvature.R . export.R . fsdir_abstraction_group.R . fsdir_abstraction_subject.R . geodesic.R . helpers.R . helpers_magick.R . hemilist.R . highlight.R . metadata_io.R . morph_agg.R . morph_atlas_agg.R . morph_concat.R . optdata.R . rglactions.R . seg_stats.R . smooth.R . spatial.R . spherical.R . vis.R . vis_dti_tracks.R . vis_group.R . vis_meshes.R . vis_multiview.R . vis_surface_background.R . vis_volume.R . vis_volume_3d.R . volume.R . Full fsbrain package functions and examples
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