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PNNL-CompBio
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spammR
Spatial Analysis of Multiomics Measurement in R
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Check about incorporating mouse geneset databases directly into leapR; making sure spammR::enrich_ORA() still runs.
#28
HarkiratSohi
opened
2 weeks ago
0
Load Pancreas dataset with tissue image(s) and metadata file
#27
HarkiratSohi
opened
2 weeks ago
0
Resolve loading of other packages used by spammR
#26
HarkiratSohi
opened
2 weeks ago
0
Add to TestData folder; show functions work using test data.
#25
HarkiratSohi
opened
2 weeks ago
0
Turn spammR into Bioconductor package
#24
HarkiratSohi
opened
2 weeks ago
0
Functions for analyzing MERFISH data
#23
HarkiratSohi
opened
11 months ago
0
Add functions for comparing proteomics and MERFISH data
#22
HarkiratSohi
opened
11 months ago
0
Add a module (set of functions) for imputing missing data
#21
HarkiratSohi
closed
2 weeks ago
1
Add functions for distance based analysis
#20
HarkiratSohi
closed
2 weeks ago
1
Add a function for exporting data from the MERFISH package
#19
HarkiratSohi
opened
11 months ago
0
Create a version of readme using brain proteomics data as an example
#18
HarkiratSohi
opened
11 months ago
0
Fixed spatialDiffEx.R
#17
HarkiratSohi
closed
1 year ago
0
1 category vs. all others
#16
HarkiratSohi
closed
1 year ago
0
5 volcano plots spatialdiffex results
#15
HarkiratSohi
closed
1 year ago
0
5 volcano plots spatialdiffex results
#14
HarkiratSohi
closed
1 year ago
0
Volcano plots for spatialDiffEx results
#13
HarkiratSohi
closed
1 year ago
0
spatialDiffEx.R - add results as an assay in output spe object
#12
HarkiratSohi
closed
1 year ago
1
Sohi dev spatial diff ex
#11
HarkiratSohi
closed
1 year ago
0
Sohi dev spatial diff ex
#10
HarkiratSohi
closed
1 year ago
0
Sohi dev spatial diff ex
#9
HarkiratSohi
closed
1 year ago
0
Add functions for Network graph visualizations
#8
HarkiratSohi
opened
1 year ago
0
Function for carrying out PCA analysis & clustering and spatial plotting of samples, color-coded by cluster color.
#7
HarkiratSohi
opened
1 year ago
1
Provide a helper function for converting IDs of the form sp|Z|X_Y to gene names
#6
HarkiratSohi
opened
1 year ago
0
Add a function for creating volcano plots for visualizing results from spatialDiffEx.R
#5
HarkiratSohi
closed
1 year ago
0
Add spatial_enrichmentInSets.R
#4
HarkiratSohi
closed
2 weeks ago
1
Add pathway_spatialExpCompare.R
#3
HarkiratSohi
opened
1 year ago
0
Make spatialDiffEx.R compatible with SPE object; allow more generalization of input parameters
#2
HarkiratSohi
closed
1 year ago
3
Sohi-dev-spatial-plotting
#1
HarkiratSohi
closed
1 year ago
0