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immunogenomics
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harmony
Fast, sensitive and accurate integration of single-cell data with Harmony
https://portals.broadinstitute.org/harmony/
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Prepare for upcoming Seurat v5 release
#209
saketkc
closed
11 months ago
1
Doc and readme fixes
#208
pati-ni
closed
11 months ago
0
[FIX] tryCatch fix, refactor mulicore logic
#207
pati-ni
closed
11 months ago
0
[FIX] BLAS thread detection misbehaving on CRAN build systems
#206
pati-ni
closed
11 months ago
0
help: over correct and umap for reductions
#205
cmf1997
closed
9 months ago
1
Harmony V1
#204
pati-ni
closed
11 months ago
0
Installation errors (R v4.1.3)
#203
ponomarevsy
closed
12 months ago
11
DE analysis after Running Harmony
#202
JS0715
closed
11 months ago
1
Harmony on large (100M cells) mass cytometry dataset
#201
wsteenhu
closed
9 months ago
1
Error in validityMethod(as(object, superClass)) : object 'Csparse_validate' not found
#200
iAMSe
closed
1 year ago
0
Obtaining batch effect estimates at cluster level
#199
wmacnair
opened
1 year ago
1
scRNAseq: thoughts on merging datasets generating from different version of 10x cellranger?
#198
ahdee
closed
11 months ago
2
Sparse matrix implementation
#197
pati-ni
closed
12 months ago
0
Integrating pairs of samples separately in a Seurat object
#196
zhang248
opened
1 year ago
0
Implementation of sparse Phi matrices in harmony
#195
pati-ni
closed
1 year ago
1
`dims.use` not used in `RunHarmony()`
#194
Van1yu3
closed
11 months ago
3
Equivalent of Seurat's IntegrateData parameter, features.to.integrate in Runharmony
#193
akhst7
opened
1 year ago
0
Cannot run on ARM architecture chip's OS X system
#192
xuemingzhang
closed
9 months ago
3
HARMONY installation error
#191
Citugulia40
closed
9 months ago
7
correct batch effect for data from different organ and integrate multiple studies
#190
Beki-seq
opened
1 year ago
1
change cosine_normalize function
#189
hongchengyao
closed
11 months ago
1
plot_convergence explanation
#188
MWRR
closed
8 months ago
2
Error in running RunHarmony
#187
Ijoanito
closed
11 months ago
7
confused about convergence
#186
Jessica-alny
opened
1 year ago
1
Bug with reduction.save
#185
mossconfuse
closed
9 months ago
1
max(nu, nv) must be strictly less than min(nrow(A), ncol(A))
#184
sailseem
closed
11 months ago
1
remove bulk data batch
#183
yinchaoyi
opened
1 year ago
0
How to obtain harmony count matrix?
#182
adelpinoherrera
closed
11 months ago
2
Error in harmonyObj$init_cluster_cpp(0) : element-wise multiplication: incompatible matrix dimensions: 100x17 and 100x13
#181
parkjooyoung99
closed
1 year ago
1
Installation error, pow is ambiguous
#180
dpryan79
closed
11 months ago
1
RunHarmony error
#179
gdk43
closed
1 year ago
2
Error installing Harmony on R version 4.2.2 (2022-11-05)
#178
chunxiaolab
opened
1 year ago
7
did not converge in 25 iterations
#177
ljy-sys
opened
1 year ago
5
`RunHarmony` - Warning: Invalid name supplied, making object name syntactically valid
#176
lucygarner
opened
1 year ago
2
ups and downs in the standard deviation
#175
showteeth
opened
1 year ago
1
Too many small clusters found after integrating data by harmony
#174
SeadonXing
closed
9 months ago
18
Error in `dplyr::select()`: ! <text>:1:5: unexpected symbol
#173
lucygarner
opened
1 year ago
4
Appropriate batch variable for specific experimental design
#172
lucygarner
opened
1 year ago
1
Error in harmonyObj$cluster_cpp(): element-wise pow()
#171
lisch7
closed
11 months ago
14
no applicable method for 'Key' applied to an object of class "character"
#170
Famingzhao
closed
1 year ago
7
Error in harmonyObj$cluster_cpp()
#169
Qirongmao97
closed
1 year ago
12
Bug: element-wise pow(): incompatible matrix dimensions: 100x63 and 63x1
#168
Famingzhao
closed
1 year ago
4
Error in harmonyObj$cluster_cpp(): element-wise pow()
#167
Mihkorz
closed
1 year ago
4
Error in harmonyObj$init_cluster_cpp
#166
yoshihiko1218
closed
11 months ago
14
Rename local pow() to avoid issue with next Armadillo
#165
eddelbuettel
closed
1 year ago
1
can harmony integrate 10X and Smart-Seq2 derived data?
#164
bijuissacch224610
closed
9 months ago
3
install issues *** stack smashing detected ***
#163
alikhuseynov
closed
2 years ago
3
Cell Cycle Regression and ScaleData
#162
adri-biochem
closed
2 years ago
1
Usage with big datasets (>2 M cells)
#161
erosix
closed
11 months ago
2
How to get the data set of cell_lines
#160
xuqiu-qiu
closed
11 months ago
1
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