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Merge 1.0.0a2 #58
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Merge 1.0.0a2 #58
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removes marker genes of other cell types from the highly variable column for each view
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Interactions names in
tileplot
anddotplot
will now be sorted according toorderby
when used; related to Sort interactions names inli.pl.tileplot
by theorderby
argument #55Added
filter_view_markers
function to filter view markers considered background in MOFAcellular tutorialAdded
keep_stats
parameter toadata_to_views
to enable pseudobulk stats to be kept.Replace
intra_groupby
andextra_groupby
withmaskby
in misty.The spots will now only be filtered according to
maskby
, such that both intra and extra both contain the same spots.The extra views are multiplied by the spatial connectivities prior to masking and the model being fit
Merge MOFAcell improvements; related to keep psbulk stats when converting to MuData #42 and added remove_hvg_marker_genes function #29
Targets with zero variance will no longer be modeled by misty.
Resolve Clean up MISTy's pipeline #46 - refactored misty's pipeline
Resolved logging and package import verbosity issues related to Verbosity/Logging #43
Iternal .obs['label'] placeholder renamed to the less generic .obs['@Label']; related to Missing Resources #53
Minor Readme & tutorial text improvements.