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drisso
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zinbwave
Clone of the Bioconductor repository for the zinbwave package, see https://bioconductor.org/packages/zinbwave
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Why are coefficients for feature covariates sample-dependent?
#74
clemenskreutz
opened
1 year ago
0
zinbsurf taking forever
#73
eltonjrv
closed
1 year ago
1
unable to find an inherited method for function ‘zinbFit’ for signature ‘"data.frame"’
#72
eltonjrv
closed
1 year ago
9
Error in d$value$value : $ operator is invalid for atomic vectors
#71
IshaMonga
opened
1 year ago
0
Sample 3 has only 0 counts!
#70
ambertrujillo
opened
2 years ago
1
Meaning of the weights
#69
RonjaJohnen
closed
3 years ago
2
Clarification on observation weights
#68
prajkta9
closed
3 years ago
1
Negative values in normalizedValues output
#67
agranado
closed
3 years ago
2
reducedDim() returns only 0
#66
yeroslaviz
closed
4 years ago
4
What's the best way to adjust the sample batch covariable in the differential expression?
#65
Yunuuuu
closed
3 years ago
3
model and K values in zinbwave + Deseq2
#64
AyanoNomura
opened
4 years ago
5
Error in zinbwave
#63
ZHIDIHUAYUAN
closed
3 years ago
1
zinbwave on integrated data set
#62
yeroslaviz
closed
4 years ago
1
How to work with duplicates?
#61
yeroslaviz
closed
4 years ago
2
Computing observational weights in the zinbwave function using a sparse matrix
#60
rfarouni
opened
4 years ago
5
W2=0 when calculating two latent variables
#59
vincr04
closed
4 years ago
3
Latent factors for differential expression
#58
vincr04
closed
4 years ago
1
Change zinbwave's default value of K
#57
drisso
closed
4 years ago
1
Documentation error for "observationalWeights"
#56
rupertoverall
closed
4 years ago
1
padjFilter column in edgeR results
#55
vincr04
closed
4 years ago
1
Decreasing log-likelihood with commondispersion = FALSE
#54
fedeago
closed
4 years ago
3
Recovery of imputed values
#53
kmuench
closed
4 years ago
1
Adding beta parameter when it uses SolveRidgeRegression function
#52
fedeago
closed
4 years ago
3
Index Error
#51
ChrisAi89
closed
4 years ago
2
Scanpy AnnData Object as Input
#50
aditisk
closed
4 years ago
3
added 0 element in nleft; this way correct columns are removed from n…
#49
SzMK
closed
4 years ago
4
zinbsurf no longer fails for formula ~1 due to lack of drop=FALSE arg…
#48
SzMK
closed
4 years ago
1
Problem generating observational weights (zinbwave_1.8.0)
#47
bgrone
closed
4 years ago
5
Normalized value negative correlation with bulk
#46
zji90
closed
5 years ago
4
zinbwave Matrix error
#45
cstrlln
closed
4 years ago
6
zinbwave design matrix
#44
JoannaTan
closed
4 years ago
3
Bug in computeObservationWeights?
#43
drisso
closed
5 years ago
4
ZinbWave + RSEC error
#42
siyao-liu
closed
5 years ago
1
Strange BCV plot for 10x data
#41
lazappi
opened
5 years ago
13
zinbAIC, zinbBIC functions seems to have got the rows and columns of the data matrix switched
#40
reubenthomas
opened
5 years ago
1
Error in getAndCheckWeights(object, modelMatrix) : all(weights.ok) is not TRUE
#39
bio-la
closed
4 years ago
1
Zinbwave parallelization issue
#38
giovp
opened
5 years ago
11
So very slow, could you develop speed-ups using, e.g., Rcpp?
#37
chriscainx
closed
6 years ago
3
zinbwave+Deseq2 Differential expression 10x
#36
bio-la
closed
4 years ago
3
Managing parallelism on cluster
#35
afinneg2
closed
6 years ago
3
Error if add gene-level covariates
#34
rtian30
opened
6 years ago
3
weights must be finite positive values
#33
ktroule
closed
6 years ago
13
No weights after zinbwave()
#32
ktroule
closed
6 years ago
2
zinbFit again stops with error
#31
friedue
closed
4 years ago
6
Verbose mode prints wrong value of log likelihood
#30
drisso
closed
6 years ago
1
normalization with 5000 or 10000 filtered genes
#29
abasseville
closed
6 years ago
4
Can't run zinbwave in R
#28
yingzhang121
closed
6 years ago
3
Running zinbwave on cluster
#27
timydaley
closed
4 years ago
4
Gene loadings
#26
bio-la
closed
6 years ago
2
maximal number of DLLs reached
#25
bio-la
closed
6 years ago
3
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