SingleR-inc SingleR issues

SingleR-inc / SingleR

Clone of the Bioconductor repository for the SingleR package.

https://bioconductor.org/packages/devel/bioc/html/SingleR.html

GNU General Public License v3.0

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issues

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Extracting cell-annotated genes

#285 wenxiang688 closed 1 day ago
6
test and ref in the function SingleR

#284 jianhaizhang closed 2 days ago
2
Switch to scrapper for marker detection and clustering.

#283 LTLA closed 1 week ago
0
Migrate internal dependences from scran to scrapper

#282 LTLA closed 1 week ago
0
Create a `plotMarkerHeatmap` function

#281 LTLA closed 1 month ago
1
Can SingleR work with a Xenium object?

#280 jbrandst7 closed 1 week ago
1
Bioc devel version: Expecting an external pointer: [type=list]

#279 bbimber closed 1 month ago
5
Split conditions and annotate

#278 feanaros closed 1 week ago
3
Clean visualization test warnings

#277 dtm2451 closed 2 months ago
0
Fix some plot-related warnings in the tests

#276 LTLA closed 2 months ago
2
Updated the CI workflow for R CMD check.

#275 LTLA closed 2 months ago
0
Update to the latest version of the singlepp library.

#274 LTLA closed 2 months ago
0
Validity of SingleR with very small bulk RNAseq reference

#273 nickhir closed 4 months ago
2
ifnb@assays$SCT$data, ifnb@assays$RNA$data

#272 zznx closed 4 months ago
4
Updates for the latest version of the tatami library.

#271 LTLA closed 6 months ago
1
SingleR: download Error

#270 isaiao01 closed 5 months ago
5
Error in is.null(rownames(x)) && nrow(x) : invalid 'y' type in 'x && y' only on ImmGen data.

#269 aleferna opened 6 months ago
3
Error: useNames = NA is defunct. Instead, specify either useNames = TRUE or useNames = FALSE. Traceback:

#268 ArzooShamoon opened 6 months ago
5
Can we use Bulk Time-series datasets to annotate other bulk RNA samples

#267 Rohit-Satyam closed 6 months ago
1
SingleR: GetAssayData doesn't work for multiple layers in v5 assay

#266 Eos-halo closed 6 months ago
1
SingleR - "sc_data" is missing

#265 nitinmahajan20 closed 6 months ago
1
singleR runs forever

#264 ryanhchung closed 9 months ago
1
"object of type 'S4' is not subsettable" error

#263 ycl6 closed 9 months ago
2
Pruned labels doubts

#262 MartaBenegas closed 9 months ago
6
Installation of SingleR in R/4.2.2 using BiocManager v3.16 fails

#260 star0044 opened 10 months ago
1
Fix color control of plotScoreHeatmap when 'normalize=TRUE'

#259 dtm2451 closed 10 months ago
3
Error： no common genes between 'test' and 'ref'

#258 MOKA1066 closed 10 months ago
1
Annotation of integrated counts

#257 LeaLe88 closed 10 months ago
2
Error: useNames = NA is defunct. Instead, specify either useNames = TRUE or useNames = FALSE.

#256 LeaLe88 closed 11 months ago
5
Error: useNames = NA is defunct. Instead, specify either useNames = TRUE or useNames = FALSE.

#255 LeaLe88 closed 11 months ago
0
JoinLayers function for Seurat Object for annotation with SingleR

#254 LeaLe88 closed 11 months ago
4
Cell Type abbreviation of ImmGenData

#253 Jammm11 closed 11 months ago
3
error when running SingleR

#252 joe-jhou2 closed 11 months ago
4
SingleR book site not found

#251 Lucyyang1991 closed 1 month ago
3
Dealing with underrepresented cell types across references

#250 samgest closed 1 year ago
1
fatal error: Rtatami.h: No such file or directory

#249 ramadatta closed 11 months ago
2
SingleR: did not converge in 10 iterations

#248 abulislam opened 1 year ago
0
Example of using harmonised labels for `de.method="wilcox"` instead of classic marker detection

#247 denvercal1234GitHub opened 1 year ago
1
Is it appropriate to use RNAseq data to annotate flow cytometry data via SingleR?

#246 denvercal1234GitHub opened 1 year ago
4
could not find function "CreateSinglerObject"

#245 coconutll closed 1 year ago
1
BiocParallel errors：could not find function ".OLD_read_block"

#244 alopehba closed 1 year ago
3
Use log-transformed P-values in `trainSingleR()`

#243 PeteHaitch closed 1 year ago
3
Should `trainSingleR()` make use of log-transformed P-values?

#241 PeteHaitch closed 1 year ago
3
Transition to the new beachmat initialization strategy.

#240 LTLA closed 1 year ago
0
runtime for SingleR

#239 gebdu closed 1 year ago
1
Library loading issue

#238 rytpark opened 1 year ago
1
Infinite execution when multithreading is enabled

#237 ATpoint closed 1 year ago
4
Vignette Doesn't Explore Between-Atlas Labelling Stability

#236 DarioS closed 1 year ago
2
Create plotScoreDistribution.R

#235 enBiter closed 1 year ago
0
Viewing the classification genes

#234 antoine4ucsd closed 1 year ago
7