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43 Open 162 Closed
43 Open 162 Closed
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Issues list

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
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
NA in RCTD result
#208 opened Jul 10, 2024 by yrsong001
Merge RCTD object
#207 opened Jul 2, 2024 by sang-15
RCTD results
#205 opened Jun 4, 2024 by balthasar0810
A question about "RCTD <- run.RCTD(RCTD, doublet_mode = "doublet")"
#203 opened May 25, 2024 by M-jk22
Creating a combined reference from multiple datasets
#202 opened May 15, 2024 by OdmaaBayar
3
RCTD on multiple spatially resolved transcriptomic datasets? Is it possible?
#201 opened May 9, 2024 by MatteoRiva95
Incorporate Spotclean results with RCTD
#199 opened Apr 16, 2024 by ayusyarif
1
Advice on choosing UMI_min_sigma for probe-based methods
#197 opened Mar 25, 2024 by dpcook
enhancement for RCTD function gather_results to increase speed.
#196 opened Mar 22, 2024 by szimmerman92
1
ProTip! What’s not been updated in a month: updated:<2024-11-25.