The hardware and bandwidth for this mirror is donated by METANET, the Webhosting and Full Service-Cloud Provider.
If you wish to report a bug, or if you are interested in having us mirror your free-software or open-source project, please feel free to contact us at mirror[@]metanet.ch.
blisa() now uses the fastLISA C/OpenMP
backend by default (fast = TRUE) for the bivariate local
Moran’s I computation. fastLISA moved from Suggests to
Imports. Results are statistically equivalent to the previous
spdep::localmoran_bv backend but not bit-identical
(different RNG).min_total_counts argument to blisa()
and hexBinCells() drops bins whose total counts (summed
over all genes) fall below the threshold during binning. Default
10.verbose argument (default FALSE) to
blisa() and hexBinCells() gates progress
messages; blisa() also shows a progress bar over the
ligand-receptor pairs in interactive sessions.lr_pairs argument to plotCCI() selects
specific ligand-receptor pairs to display, overriding
top_lr.main argument to plotCCI(),
plotCCILR(), and plotCCIsummary() adds a title
above the heatmap.LR_results row names are now informative IDs built from
the ligand/receptor symbols, with subunits joined by | and
the two sides by _ (e.g. TGFB1_TGFBR2|TGFBR1).
The original CellChatDB interaction_name is retained in a
new interaction_name column.plotCCIspatial() now handles multi-subunit
ligand/receptor complexes (previously errored with
subscript out of bounds).plotHotspots(), plotCCIspatial(), and
plotCCILR() now match the
ligand/receptor arguments by subunit set,
independent of order, separator (,, _,
|), and whitespace.fast = TRUE option to blisa() which
uses fastLISA::local_moran_bv (C/OpenMP backend) instead of
spdep::localmoran_bv for the bivariate local Moran’s I
computation. Default behaviour unchanged.cpu_threads argument controlling parallelism when
fast = TRUE.These binaries (installable software) and packages are in development.
They may not be fully stable and should be used with caution. We make no claims about them.