Comments (3)
Since igraph has delete the function 'as_adjacency_matrix()'
This is incorrect. This function was not removed, and will not be removed from igraph.
from braingraph.
Yeah, you are right. I'm sorry for my unclear words.
The function 'as_adjacency_matrix()' was no longer to support attributions of character in version 2.0.0 (https://r.igraph.org/news/index.html).
I reports this function because when I install the brainGraph 3.0.0 in the R 4.4.0 with my ubuntu 20.04 system, the R terminal reminds me errors of using 'as_adjacency_matrix()' which can't be worked in igraph upper version 2.0.0.
Therefore, I recommend the following code to run brainGraph with new version of R:
'# remotes::install_version("igraph", version = "1.6.0")'
'library(igraph) # 1.6.0'
'packageVersion("igraph") # 1.6.0'
from braingraph.
Results comparison between GRETNA and brainGraph:
computation config
GRETNA (weighted)
GRETNA (binary)
brainGraph
Results Comparison
GRETNA (weighted)
GRETNA (binary)
brainGraph
Conclusion
(1) Density in brainGraph = Network Sparsity in GRETNA = rate threshold (contrast with fixed threshold)
(2) Results of brainGraph are same to GRETNA
(3) In brainGraph, the indicator with ‘wt’ represents ‘weighted’ and without ‘wt’ represents ‘binary’
(4) I recommend to use brainGraph rather than GRETNA
from braingraph.
Related Issues (20)
- Weighted Graph Efficiency HOT 2
- connectivity matrices from ExploreDTI HOT 7
- Error get.resid() function: x is not data.table HOT 6
- plot.braingraph function HOT 9
- Called from: e$fun(obj, substitute(ex), parent.frame(), e$data) HOT 2
- Consider submitting to Neuroconductor HOT 1
- error in running make_brainGraphList HOT 11
- Foreach is unable to access custom atlas object in make_brainGraphList() HOT 7
- robustness function, random error HOT 15
- Remapping coordinates into DK HOT 1
- import_scn gives error when using scgm
- Conflict between different packages, robustness function, random error HOT 1
- Problem with "create_mats" HOT 1
- Several recommendations for the developing of this brilliant work HOT 1
- make_brainGraphList error HOT 4
- Error in code? HOT 2
- vertex_attr_dt error in rbindlist: non existing column(s) 'density'
- suggest setting 'atlas' in make_brainGraphList from necessary to optional
- Custom Atlas and lobe/hemisphere allocation HOT 1
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