tpq propr issues - Githubissues

tpq / propr

[OFFICIAL] [CoDA] An R package to calculate proportionality and other measures for compositional data

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How do we download and install?

#47 mpage21 closed 3 weeks ago
2
[feature] Added accesory functions like getAdj and optimized graflex

#46 suzannejin opened 2 months ago
0
New vignettes

#45 SilasK opened 3 months ago
2
[fix] GREA is too slow, improve the code

#44 suzannejin opened 3 months ago
0
Interests about python implementation

#43 HelloWorldLTY opened 4 months ago
6
Update to version 5.0.1

#42 suzannejin closed 8 months ago
0
changed pcor.bshrink so that the alr columns are 0 instead of NaN, otherwise the updateCutoff() function will give NaNs

#41 suzannejin closed 8 months ago
0
any option for robust or weighted metrics?

#40 rsiani closed 9 months ago
2
fix some bugs in pcor.bshrink related code

#39 suzannejin closed 9 months ago
1
[Question] Revisiting Multi-omic Analysis

#38 mirpie opened 11 months ago
0
[Question] Understanding why CLR -> Correlation is not compositionally-valid

#37 jolespin opened 1 year ago
1
Partial correlations with basis shrinkage

#36 suzannejin closed 1 year ago
0
aldex.glm expects different input in propr vs aldex2 packages, leading to errors when both are loaded

#35 rrohwer opened 2 years ago
0
Question about implementing ALR with ERCC92 spike ins

#34 jolespin opened 2 years ago
0
BUG REPORT lr2cor "r" column goes beyond (-1, 1)

#33 tpq opened 2 years ago
0
Correct FDR calculation for partial correlation

#32 suzannejin closed 2 years ago
1
Add partial correlations to propr

#31 danfulop closed 2 years ago
14
Question about the propr `select` argument

#30 JemmaSun opened 2 years ago
3
Add Rcpp counting functions

#29 mooreryan closed 2 years ago
1
Set propr permutations to zero inside updateCutoffs (#27)

#28 mooreryan closed 2 years ago
0
`updateCutoffs.propr` speedup

#27 mooreryan closed 2 years ago
2
Error in propr(counts, metric = "rho", ...) : Data may not contain negative measurements.

#26 JemmaSun closed 3 years ago
2
Question about significant proportionalities

#25 alopgar opened 3 years ago
3
Question about scaling propr to very large data sets (Part 2)

#24 sapuizait opened 3 years ago
11
Question about differences between propr versions

#23 suzannejin opened 3 years ago
6
Question about centered log-ratio transformation

#22 li000678 closed 3 years ago
2
Question about dimension reduction for single-cell and other data

#21 SilasK opened 3 years ago
3
Meaning of lrv and interpreting negative rho values...

#20 lix2k3 closed 3 years ago
1
Question about scaling propr to very large data sets (Part 1)

#19 suzannejin opened 3 years ago
1
Question about lr2glm model.matrix argument

#18 MeggyC opened 4 years ago
2
Question about how to interpret rho and FDR

#17 taylorreiter opened 4 years ago
2
Extracting connected components from `propr` objects

#16 grayfall closed 4 years ago
2
Error in labRcpp(ncol(lr)) : Index out of bounds

#15 grayfall closed 4 years ago
1
Fixing integer overflows

#14 grayfall closed 4 years ago
0
Error in labRcpp(ncol(lr)) : negative length vectors are not allowed

#13 grayfall opened 4 years ago
14
Error: posthoc reports finding negative measurements where there is none

#12 tormolle opened 4 years ago
7
Question about when to use CLR or ILR

#11 jolespin opened 4 years ago
15
Question about how FDR is calculated

#10 mooreryan opened 4 years ago
2
Question about using propr with multi-omics data

#9 handibles opened 4 years ago
5
feature request: allow specifying contrasts and p-value correction in posthoc()

#8 yanxianl opened 4 years ago
0
Shrunken plots in vignettes

#7 adriaaula closed 5 years ago
1
Add parallel option to updateCutoffs

#6 mooreryan closed 5 years ago
3
Would it not be good to use dgCMatrix instead of a matrix in your class?

#5 stela2502 closed 5 years ago
1
Question about why not to use negative rho

#4 maubarsom opened 5 years ago
6
out-of-bounds theta_mod

#3 tpq closed 6 years ago
1
updateCutoffs fail when using theta_mod

#2 tpq closed 6 years ago
1
delete plot(g)

#1 slowkow closed 6 years ago
1