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Issues list

C-SIDE without RCTD cell type estimates
#174 opened Aug 28, 2023 by KaBach
1 👍 5
Question on deconvolution using RCTD
#219 opened Nov 1, 2024 by wzdrgi
👍 1
RCTD results
#205 opened Jun 4, 2024 by balthasar0810
👍 1
Question about spot filtering in create.RCTD step
#223 opened Nov 26, 2024 by Yijia-Jiang
👍 1
Strategy needed: RCTD deconvolution for large-scale mouse liver spatial transcriptomics data (99,894 spots)
#225 opened Dec 12, 2024 by Lao-Tz
👍 1
Error in run.CSIDE.replicates: 'object RCTD_controls not found'
#163 opened Jun 13, 2023 by krademaker
2
Unknown function run.de.single
#169 opened Jul 28, 2023 by statwangz
Error when running run.RCTD after using class_df
#170 opened Jul 31, 2023 by Hanxi-002
Clustering using RCTD output
#173 opened Aug 4, 2023 by oghzzang
Error when running run.CSIDE.replicates, doublet_mode not found in myRCTD@config
#177 opened Sep 11, 2023 by rpisalive
5
some parameters are set to the CSIDE vignette values, which are intended for testing but not proper execution.
#179 opened Oct 27, 2023 by sopenaml
6
Drop cell type in reference
#233 opened Mar 3, 2025 by GCAT01
CSIDE results csv files all vs. sig
#185 opened Dec 19, 2023 by meaksu
1
Reference data for J20 Hippocampus Slide-seq analysis
#188 opened Jan 11, 2024 by Vivianstats
1
p vs p_cross with disease replicates?
#189 opened Jan 18, 2024 by zweiss22
Performing CSIDE across samples of various conditions
#145 opened Mar 31, 2023 by Dillon214
3
Meta regression steps and Error
#191 opened Feb 8, 2024 by meaksu
1
RCTD method's cell type weights doesn't sum to 1
#193 opened Feb 16, 2024 by Lahiru-lsb
1
Population meta analysis multi-covariate error
#195 opened Mar 14, 2024 by zweiss22
enhancement for RCTD function gather_results to increase speed.
#196 opened Mar 22, 2024 by szimmerman92
3
Advice on choosing UMI_min_sigma for probe-based methods
#197 opened Mar 25, 2024 by dpcook
Incorporate Spotclean results with RCTD
#199 opened Apr 16, 2024 by ayusyarif
1
Creating a combined reference from multiple datasets
#202 opened May 15, 2024 by OdmaaBayar
3
A question about "RCTD <- run.RCTD(RCTD, doublet_mode = "doublet")"
#203 opened May 25, 2024 by M-jk22
How are the spots assigned to doublet_certain vs. doublet_uncertain and reject?
#190 opened Jan 19, 2024 by dbuszta
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