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broadinstitute
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infercnv
Inferring CNV from Single-Cell RNA-Seq
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Use Leiden algorithm as implemented in igraph>=1.2.7
#378
vtraag
closed
2 years ago
0
An error that occurred at Step 18.
#377
Rui-Jing
closed
2 years ago
2
The infercnv result does not contain the X chromosome
#376
Rui-Jing
closed
2 years ago
1
problem creating inferCNV object
#375
bpitarchj
closed
3 years ago
1
add_to_seurat empty output
#374
igordot
opened
3 years ago
9
Blue HMM State Colors For Amplifications
#373
tjbencomo
closed
2 years ago
2
Error when running step 18: png() device
#372
monikaramos
closed
3 years ago
0
Plotting error in Step 15, 17 or 18.
#371
jiazhen-rong
closed
3 years ago
1
including known normal cells as observations
#370
igordot
closed
2 years ago
1
Error invalid or not-yet-implemented 'Matrix' subsetting
#369
marlaherr
closed
3 years ago
2
STEP 18: Run Bayesian Network Model on HMM predicted CNV's ( assignment of an object of class “character” is not valid for @‘cnv_regions’ in an object of class “MCMC_inferCNV”; is(value, "factor") is not TRUE)
#368
khl0798
closed
2 years ago
1
which output file represent CNV value？
#367
linanabc123
closed
2 years ago
1
Different inferCNV.png ouput with and without HMM arguments
#366
yannk-lm
closed
2 years ago
3
denoised and HMM-subcluster-mode have the difference number of clusters in plots, But ...
#365
Chuang1118
closed
2 years ago
3
plot_cnv()：Error in rep(contig_name, contig_tbl[contig_name]) : 'times'参数不对
#364
shijianasdf
closed
2 years ago
2
Long time for this step "plot_cnv_observation:Writing observation groupings/color"
#363
anchormok
closed
2 years ago
2
All plots blank - output otherwise normal - run on latest docker image
#362
reberya
closed
2 years ago
16
running time
#361
Sa753
closed
2 years ago
12
Error in running inferCNV : assignment of an object of class "logical" is not valid for @'cnv_regions' in an object of class "MCMC_inferCNV"; is(value, "factor") is not TRUE Calls: <Anonymous> ... initializeObject -> initializeObject -> <Anonymous> Execution halted
#360
tinakeshav
closed
2 years ago
1
Error with python
#359
Sa753
closed
2 years ago
5
gene_order_file ?
#358
Sa753
closed
3 years ago
2
ngchm object can't be generated
#357
Sa753
closed
2 years ago
4
Step 18: Loading BUGS Model
#356
bigape1
closed
3 years ago
0
CNV predictions not reproducible when running the same analysis again
#355
NBeumer
closed
2 years ago
2
how to download the gene_position_data for inferCNV
#354
honghh2018
closed
2 years ago
1
add_to_seurat doesn't return updated metadata with analysis_mode='subclusters'
#353
blakecaldwell
closed
2 years ago
1
Step 15 Error
#352
bigape1
closed
3 years ago
3
How to modify the left color bar?
#351
cqz7633
closed
2 years ago
3
Parallelize get_predicted_CNV_regions
#350
blakecaldwell
opened
3 years ago
0
Cannot reproduce the melanoma paper using the latest version of infercnv
#349
ptdtan
closed
3 years ago
1
Argument "include.spike" in infercnv version 1.8
#348
chayanit1234
closed
2 years ago
1
Error while running plot_cnv
#347
Chhiring-Lama
closed
2 years ago
5
How to deal with batch effect?
#346
fangfang0906
closed
2 years ago
3
Identify malignant cell
#345
zym826
closed
2 years ago
4
The running time
#344
zym826
closed
3 years ago
1
Option to reference each observation against two reference groups
#343
marlaherr
closed
2 years ago
1
Error in !(all.equal(ref_group_names, orig_ref_group_names)): invalid argument type
#342
raithom
closed
2 years ago
7
Error in FUN(left, right)
#341
shift900
closed
2 years ago
1
Annotation differences between infercnv.png and ngchm heatmap
#340
ElenaTT
closed
3 years ago
17
out_dir error
#339
GHAStVHenry
closed
3 years ago
4
How to calculate the score of CNV ?
#338
xiangjiaobunana
closed
2 years ago
4
Subcluster name formatting
#337
ktessema
closed
3 years ago
3
infercnv.observations_dendrogram.txt contains only part of the cell information to be predicted
#336
hah2468
closed
2 years ago
1
C stack usage 7972356 is too close to the limit
#335
bobbyshih
closed
2 years ago
2
Working with inferCNV without normal cell reference
#334
yana123668
closed
2 years ago
1
Error in `colnames<-`(`*tmp*`, value = cnv_regions)
#333
miaoyu01
closed
2 years ago
1
Error in CreateInfercnvObject function
#332
chatterjee89
closed
2 years ago
3
It it ok to use stromal cell clusters as reference when I want to test against probable epithelial tumor cell clusters?
#331
kaizen89
closed
2 years ago
1
The cross samples to estimate the CNV using inferCNV packages
#330
honghh2018
closed
2 years ago
4
Plot_cnv for each individual after inferring CNV using integrated count matrix
#329
mlin2017
closed
2 years ago
4
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