issues
search
mani2012
/
PathoStat
The purpose of this package is to perform Statistical Analysis on the PathoScope generated reports files.
8
stars
9
forks
source link
issues
Newest
Newest
Most commented
Recently updated
Oldest
Least commented
Least recently updated
Shini not working
#48
DrMaestre
opened
3 years ago
1
fix heatmap
#47
jasonzhao0307
closed
5 years ago
0
fix readPathoScope examples in taxonomy
#46
jasonzhao0307
closed
5 years ago
0
modify how to get tid from id
#45
jasonzhao0307
closed
5 years ago
0
update into new bioC release
#44
jasonzhao0307
closed
5 years ago
0
Update for new bioconductor release
#43
jasonzhao0307
closed
5 years ago
0
Added the option for .rds file when uploading PathoStat object file
#42
anfederico
closed
6 years ago
0
Fix bray distance bug caused by vegan update
#41
jasonzhao0307
closed
6 years ago
0
fix few bugs
#40
jasonzhao0307
closed
6 years ago
0
Fix Error and Warnings
#39
jasonzhao0307
closed
6 years ago
0
Update pathostat
#38
jasonzhao0307
closed
6 years ago
0
Add data upload and filtering tab
#37
jasonzhao0307
closed
6 years ago
0
Modify PCA and differential analysis
#36
jasonzhao0307
closed
6 years ago
0
Modify dimension reduction and diversity tab
#35
jasonzhao0307
closed
6 years ago
0
Modify PCA/PCoA
#34
jasonzhao0307
closed
6 years ago
1
Add RA plot sorting function and colorbar to heatmap
#33
jasonzhao0307
closed
6 years ago
0
files updated after running devtools::document()
#32
mlbendall
closed
7 years ago
1
included examples, fixed NOTE
#31
mlbendall
closed
7 years ago
0
CoreOTUs
#30
mlbendall
closed
7 years ago
0
Taxonomy table data structure
#29
mlbendall
opened
7 years ago
1
Improve formatting of taxonomy table
#28
mlbendall
opened
7 years ago
0
Alluvial plot implemented
#27
Sanrrone
closed
7 years ago
0
Git ignore packrat libraries and files
#26
mlbendall
closed
7 years ago
0
sync alluvial plot
#25
Sanrrone
closed
7 years ago
4
alluvial plot implemented
#24
Sanrrone
closed
7 years ago
2
Revert "alluvial plot hard code"
#23
mani2012
closed
7 years ago
0
Full covariate selection for Diff Exp tab
#22
tfaits
closed
7 years ago
1
alluvial plot hard code
#21
Sanrrone
closed
7 years ago
8
Enables covariate selection
#20
tfaits
closed
7 years ago
0
Creates covariate dropdown menu
#19
tfaits
closed
7 years ago
0
OTU filtering
#18
mlbendall
opened
7 years ago
5
Remove dependency on "microbiome"
#17
mlbendall
closed
7 years ago
5
Implement core microbiome heatmap
#16
mlbendall
closed
7 years ago
0
Implement core microbiome 2D plot
#15
mlbendall
closed
7 years ago
0
Load reports
#14
mlbendall
closed
7 years ago
5
Load phyloseq object into shiny server (temporary)
#13
mlbendall
closed
7 years ago
2
Check that cached taxonomy matches with loaded reports
#12
mlbendall
closed
7 years ago
1
Modularize code
#11
mlbendall
opened
7 years ago
4
Allows differential exp plot to pick covariates
#10
tfaits
closed
7 years ago
1
force differential exp boxplot to use phyloseq
#9
tfaits
closed
7 years ago
0
Create color scheme that can be used across modules
#8
mlbendall
opened
7 years ago
0
Distinguish between discrete and continuous variables
#7
tfaits
opened
7 years ago
1
Coerce input data into phyloseq-class objects
#6
tfaits
opened
7 years ago
0
Accommodate phyloseq-class objects throughout
#5
tfaits
closed
7 years ago
1
Implement temporal analysis and visualization tab
#4
ecastron
opened
7 years ago
1
Enabled caching of taxonomy data
#3
mlbendall
closed
8 years ago
6
Relative abundance and count tables uses datatables
#2
mlbendall
closed
8 years ago
0
BatchQC dependency
#1
mlbendall
closed
8 years ago
1