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52 Open 162 Closed
52 Open 162 Closed
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Issues list

RCTD reference choice
#234 opened Mar 10, 2025 by Chelsea-yy
Drop cell type in reference
#233 opened Mar 3, 2025 by GCAT01
Is there a function that can directly run CSIDE for non-RCTD objects?
#232 opened Feb 24, 2025 by Santanevrgivup
Post-Processing Cell Annotation of Doublets
#231 opened Feb 17, 2025 by dblevenson
3
How to choose the best mode multi or full?
#230 opened Feb 13, 2025 by vagm110901
get_de_genes: At least 90% of genes do not match between the SpatialRNA and Reference objects.
#229 opened Jan 29, 2025 by nasimbio
1
RCTD for bulk to sc devonvolution
#228 opened Jan 27, 2025 by li-xuyang28
Error in run.RCTD(), could not find function "solveIRWLS.weights"
#227 opened Jan 24, 2025 by luoyufei
3
Encountered infinite loop while running run.RCTD()
#226 opened Jan 19, 2025 by gaohaohoa
Strategy needed: RCTD deconvolution for large-scale mouse liver spatial transcriptomics data (99,894 spots)
#225 opened Dec 12, 2024 by Lao-Tz
when i run" GSM6506110_RCTD <- run.RCTD(GSM6506110, doublet_mode = 'doublet')"
#224 opened Dec 5, 2024 by seekning
Question about spot filtering in create.RCTD step
#223 opened Nov 26, 2024 by Yijia-Jiang
Driver genes
#222 opened Nov 14, 2024 by p-gueguen
Error in [<-.data.frame(*tmp*, col, value = c("KC33_AAACCCAAGTAGTCAA", : replacement has 76211 rows, data has 694321 Calls: read_reference -> read_adata -> read_df -> [<- -> [<-.data.frame
#221 opened Nov 8, 2024 by reinertanalytics
Error no cell types passed weight threshold on full mode
#220 opened Nov 4, 2024 by Yijia-Jiang
Question on deconvolution using RCTD
#219 opened Nov 1, 2024 by wzdrgi
"Cannot assign an object of class 'numeric' to the slot @‘counts’ in an object of class 'SpatialRNA'; is(value, 'dgCMatrix') is not TRUE."
#218 opened Oct 29, 2024 by Roger-GOAT
1
Question about CSIDE
#217 opened Oct 25, 2024 by nilchia
Unable to run deconvolution after data spliting
#216 opened Oct 21, 2024 by Yijia-Jiang
Behavior of RCTD multi-cores
#215 opened Oct 17, 2024 by WuRAFY
3
Interactive selection of cells in spatial data for covariate assignment?
#214 opened Oct 10, 2024 by alexwskh
Running CSIDE on across multiple tissue sections
#213 opened Oct 8, 2024 by suerle
0 overlapping genes between query and reference error
#211 opened Sep 5, 2024 by billyt-gene
Issue with class_df in create.RCTD
#210 opened Aug 8, 2024 by Jiayi-Zheng
Missing files meta_data.csv and dge.csv
#209 opened Jul 31, 2024 by ChangCharity
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