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Nanostring-Biostats
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InSituType
An R package for performing cell typing in SMI and other single cell data
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remove dependency on spatialdecon
#159
patrickjdanaher
closed
1 year ago
2
add supervised vignette and bugfix in refineClusters
#158
patrickjdanaher
closed
2 years ago
0
Add unsupervised clustering vignette
#157
patrickjdanaher
closed
2 years ago
0
error in refineClusters
#156
patrickjdanaher
closed
2 years ago
1
insitutypeML errors cryptically for 0-count cells
#155
patrickjdanaher
closed
1 year ago
0
return profiles from refineClusters
#154
patrickjdanaher
closed
2 years ago
0
import colorCellTypes function from ptolemy
#153
patrickjdanaher
closed
1 year ago
0
Iss146 get rid of tissue specific workflow
#152
patrickjdanaher
closed
2 years ago
0
Iss142 update semisup
#151
patrickjdanaher
closed
2 years ago
0
key speed improvement: make the lldist() call faster
#150
patrickjdanaher
closed
1 year ago
2
update reference profiles in insitutypeML?
#149
patrickjdanaher
closed
5 months ago
1
updateReferenceProfiles - make smarter
#148
patrickjdanaher
closed
5 months ago
1
cohorting - should we use much smaller cohorts, e.g. just 1000 cells?
#147
patrickjdanaher
opened
2 years ago
0
get rid of tissue-specific workflow?
#146
patrickjdanaher
closed
2 years ago
1
Iss122 autorescaling reference
#145
patrickjdanaher
closed
2 years ago
0
Iss132 cohorting
#144
patrickjdanaher
closed
2 years ago
0
when computing profiles at last step, need to handle profiles with no clusters
#143
patrickjdanaher
closed
2 years ago
1
semi-supervised final version
#142
patrickjdanaher
closed
5 months ago
8
vignettes updates
#141
patrickjdanaher
closed
1 year ago
1
Testing improvements for accuracy
#140
patrickjdanaher
closed
1 year ago
0
Iss127 sketching bug
#139
patrickjdanaher
closed
2 years ago
0
update subsample size defaults
#138
patrickjdanaher
closed
2 years ago
0
Iss126 subcluster
#137
patrickjdanaher
closed
2 years ago
0
accepting multiple matrix types
#136
patrickjdanaher
closed
1 year ago
1
Iss131 bayes rule in sup
#135
patrickjdanaher
closed
2 years ago
0
add prob to mergeCells outputs
#134
patrickjdanaher
closed
2 years ago
0
mergeCells should return prob and profiles
#133
patrickjdanaher
closed
2 years ago
1
incorporating spatial information (future option)
#132
patrickjdanaher
closed
2 years ago
4
bayes rule for insitutypeML
#131
patrickjdanaher
closed
2 years ago
2
insitutypeML now outputs profiles
#130
patrickjdanaher
closed
2 years ago
0
Flightpath refinements
#129
patrickjdanaher
closed
2 years ago
0
insitutypeML should return profiles
#128
patrickjdanaher
closed
2 years ago
1
bug in prepdataforsketching
#127
patrickjdanaher
closed
2 years ago
1
mergeCells should have an option to sub-cluster a given cell type
#126
patrickjdanaher
closed
2 years ago
5
flightpath ggplot function is slow
#125
patrickjdanaher
closed
5 months ago
2
more generous convergence criteria in phases 1 & 2
#124
patrickjdanaher
closed
2 years ago
1
Usability and guidance
#123
patrickjdanaher
closed
2 years ago
1
auto-rescaling of reference profiles
#122
patrickjdanaher
closed
2 years ago
1
Iss119 0s to n as
#121
patrickjdanaher
closed
2 years ago
0
bug: insituteType error in match argument
#120
lidanwu
closed
2 years ago
4
bug: what should be NAs in logliks are called 0
#119
patrickjdanaher
closed
2 years ago
0
Iss117 mergecells prob0
#118
patrickjdanaher
closed
2 years ago
0
mergeCells needs to call cells with p=1 for deleted cell types
#117
patrickjdanaher
closed
2 years ago
1
Iss115 flag ambiguous clusters
#116
patrickjdanaher
closed
2 years ago
0
flag clusters with high confusion rates
#115
patrickjdanaher
closed
2 years ago
1
Iss102 multi sample workflow
#114
patrickjdanaher
closed
2 years ago
0
Can we save progress at intermediate steps in case there's a crash?
#113
patrickjdanaher
closed
2 years ago
1
Insitutype error during iteration 8 of phase 3
#112
mtgregory
closed
2 years ago
1
Iss109 warn about missing anchor types
#111
patrickjdanaher
closed
2 years ago
0
mergeCells should be able to remove clusters
#110
patrickjdanaher
closed
2 years ago
1
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