jtleek sva-devel issues

jtleek / sva-devel

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ComBat-met added

#62 JmWangBio opened 1 month ago
0
Potential issue with sva_network

#61 s-a-nersisyan opened 4 months ago
0
SVA() : Error in density.default(x, adjust = adj) : 'x' contains missing values

#60 sarakn97 opened 1 year ago
0
combat for epic array data

#59 bioinfonext opened 1 year ago
0
Update ComBat.R

#58 elies-ramon opened 1 year ago
3
What to do when n.sv is large

#57 bhallmar opened 1 year ago
0
Correct way to use n.sv() on count based data: normalize or no?

#56 zntaylgit opened 1 year ago
0
Should the data be scaled before running Combat?

#55 lincj1994 opened 2 years ago
2
Runtime of Combat

#54 WarrenSu2022 opened 2 years ago
2
Should Combat be performed if I want to compare a signature score between TCGA RNA-seq and our own RNA-seq data?

#53 lincj1994 closed 2 years ago
2
Combat returns negative values.

#52 lincj1994 closed 2 years ago
3
Can you add the parameter of ref.batch in ComBat-Seq?

#51 lincj1994 closed 2 years ago
5
fix spacing issues

#50 schifferl closed 2 years ago
0
Combat-seq in two batches of RNA-seq with different reference genomes.

#49 lincj1994 closed 2 years ago
1
Speed up match_quantiles function for ComBat_seq functon

#48 lrf2019 opened 3 years ago
0
Iteration (out of 5 ):Error in density.default(x, adjust = adj) : 'x' contains missing values

#47 romunov closed 3 years ago
2
ComBat doesn't work when data matrix contains only 1 variable

#46 lashmore opened 3 years ago
0
Error in `return()` call in `fsva()`.

#45 rorynolan opened 3 years ago
0
How do I use ComBat_seq to get the matrix count after removing the batch

#44 BeyondMyPast228 opened 3 years ago
1
sva Vignettes example qValues vs qValuesSv

#43 arkyl opened 4 years ago
0
Error in while (change > conv) { : missing value where TRUE/FALSE needed

#42 huangl07 opened 4 years ago
11
update documentation for sva_network

#41 princyparsana closed 4 years ago
0
combat-seq input

#40 saicharanp18 closed 4 years ago
1
Adding combat-seq to sva

#39 zhangyuqing closed 4 years ago
5
sva_network Example(sva_network) should show transposed matrix

#38 InesdeSantiago opened 4 years ago
0
Combat returns NaN

#37 vkorobeynyk opened 5 years ago
6
Suggested clarification of contrasts matrix in vignette

#36 lefeverde opened 5 years ago
0
coerce dat into matrix & address zero variance genes within any single batch

#35 zhangyuqing closed 4 years ago
0
f.pvalue function gives absurd results on zero-variance rows

#34 DarwinAwardWinner opened 6 years ago
2
When plotting ComBat prior.plots, save the original state of the graphical parameters

#33 dfjenkins3 closed 4 years ago
2
Update ComBat.R

#32 kasperdanielhansen closed 6 years ago
2
Some small changes

#31 cafletezbrant closed 6 years ago
0
Added spacing to messages

#30 Shians closed 6 years ago
2
Minor fix to absent spaces in messages

#29 oganm closed 7 years ago
1
Improve consistency among message, warnings, and errors

#28 DarwinAwardWinner opened 7 years ago
1
Error in density.default

#27 royfrancis opened 7 years ago
6
Fixed the bug from a month ago

#26 cafletezbrant closed 7 years ago
0
Fixes for edge cases of n.sv <= 1

#25 DarwinAwardWinner closed 7 years ago
1
ComBat fails with updated ComBat.R

#24 cafletezbrant opened 7 years ago
4
Edits to ComBat

#23 kasperdanielhansen closed 7 years ago
0
removing files commited by mistake

#22 kasperdanielhansen closed 7 years ago
3
Fix issues in ComBat prior plotting code

#21 DarwinAwardWinner closed 7 years ago
1
Performing ComBat without standardizing data?

#20 jakeyeung closed 7 years ago
2
X and Y axes for ComBat QQ plots are not consistent

#19 DarwinAwardWinner closed 7 years ago
0
remove B for irwsva.build

#18 yufree opened 7 years ago
0
perhaps I should turn off "(add-hook 'before-save-hook 'delete-traili…

#17 abelew opened 7 years ago
0
Add BiocParallel support for ComBat

#16 DarwinAwardWinner closed 7 years ago
3
adding degradation correction

#15 andrewejaffe closed 8 years ago
0
ComBat silently fails when a row has non-zero values for only a single batch and mean.only=TRUE

#14 khughitt opened 8 years ago
19
Exclude rows with no variance from batch adjustment

#13 khughitt opened 8 years ago
3