igraph 1.4.0

Breaking changes

• Breaking change: Allow change of attribute type when setting attribute for all vertices or edges; only attributes of length 1 or the length of the target set allowed (#633).

Added

• tkplot() gained a palette argument and it is now using the same palette as plot() by default, for sake of consistency.
• plot.igraph() gained a loop.size argument that can be used to scale the common radius of the loop edges.

Fixed

• The default maximum number of iterations for ARPACK has been increased to 3000 to match that of the igraph C core.
• Rare convergence problems have been corrected in cluster_leading_eigen().
• All ARPACK-based functions now respect random seeds set in R when generating a random starting vector.
• igraph_version() returned an invalid value in 1.3.4, this is now corrected.
• The value of par(xpd=...) is now restored after plotting a graph.
• Fixed a bug in as.dendrogram.communities() for large dendrograms, thanks
  to @pkharchenko (see PR #292).
• Fixed two bugs in graph_from_incidence_matrix() that prevented the creation of directed graphs with mode="all" from dense or sparse matrices.
• dfs() accidentally returned zero-based root vertex indices in the result object; this is now fixed and the indices are now 1-based.
• as_graphnel() does not duplicate loop edges any more.
• convex_hull() now returns the vertices of the convex hull with 1-based indexing.
• Some rgl.*() function calls in the codebase were replaced with equivalent *3d() function calls in preparation for upcoming deprecations in rgl (see PR #619)
• plot.igraph() does not use the frame=... partial argument any more when calling plot.default(). The default NULL value of frame.plot is now also handled correctly.
• hub_score() and authority_score() considered self-loops only once on the diagonal of the adjacency matrix of undirected graphs, thus the result was not identical to that obtained by eigen_centrality() on loopy undirected graphs. This is now corrected.
• distances() no longer ignores the mode parameter when algorithm='johnson'.

Deprecated

• automorphisms() was renamed to count_automorphisms(); the old name is still available, but it is deprecated.

Other

• Documentation improvements.
• The Github repository was now moved to a single-branch setup where the package can be built from the main branch directly.
• Added igraph extended tutorial as an R vignette (#587).
• igraph now has a homepage based on pkgdown thanks to @maelle (see #645). This will eventually become the official homepage.