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Issues list

reorder cell order in heatmap output
#192 by patelgrp was closed Jun 4, 2024 updated Jun 4, 2024
2
Numbat assigned clone coloring in Panel.png
#191 by quail768 was closed May 30, 2024 updated May 30, 2024
How to generate the plotEmbedding in a numbat object?
#168 by christophechu was closed May 3, 2024 updated May 3, 2024
1
Excluding segs_loh causes multiple CNV states for the same segment tofix
#183 by teng-gao was closed May 3, 2024 updated May 3, 2024
2
Input only the gene expression matrix
#187 by Moey-git was closed Apr 28, 2024 updated Apr 28, 2024
2
Running numbat in multiple samples from same patient
#176 by ccruizm was closed Apr 15, 2024 updated Apr 15, 2024
1
Error in find_common_diploid(bulks, gamma = gamma, alpha = alpha, ncores = ncores) : Error in smooth_segs(., min_genes = min_genes) :
#163 by whitneyt1 was closed Apr 5, 2024 updated Apr 5, 2024
6
Error in mutate(., state = run_allele_hmm ... Not a matrix
#177 by whitneyt1 was closed Apr 5, 2024 updated Apr 5, 2024
2
Error in mutate(): ℹ In argument: snp_index = 1:n(). Caused by error: ! snp_index must be size 0 or 1, not 2.
#167 by cathalgking was closed Apr 5, 2024 updated Apr 5, 2024
8
Better error handling when one of the pileup fails
#179 by teng-gao was closed Mar 21, 2024 updated Mar 21, 2024
Issues visualizing CNV posterior in tSNE embedding using pagoda
#116 by bobbyshih was closed Apr 28, 2023 updated Feb 27, 2024
2
Fail during numbat run : object 'seg' not found
#80 by kokonech was closed Dec 26, 2022 updated Feb 25, 2024
2
Running numbat on merged bam [smart-seq]
#60 by Laolga was closed Nov 17, 2022 updated Feb 1, 2024
3
cnv_state Column Description is Vague
#152 by DarioS was closed Jan 21, 2024 updated Jan 21, 2024
4
High ploidy cell lines
#144 by thomasveith was closed Jan 21, 2024 updated Jan 21, 2024
5
Cell Ranger Count Default Intronic Counting Impact
#155 by DarioS was closed Jan 21, 2024 updated Jan 21, 2024
1
Overwrite identifiers
#156 by SollyBunny was closed Jan 18, 2024 updated Jan 18, 2024
1
WASHU MM study Bioproject data not available
#149 by juniajvs was closed Nov 15, 2023 updated Nov 15, 2023
1
Why is there so much LoH in the mouse data tutorial?
#139 by thomasveith was closed Oct 26, 2023 updated Oct 26, 2023
3
Troubleshoot Error - missing files in output directory
#141 by RaghadShu was closed Oct 6, 2023 updated Oct 6, 2023
1
No CNVs detected for tumor data
#134 by SirKuikka was closed Aug 15, 2023 updated Aug 15, 2023
4
Issue about Interpretation of Results of the section Tumor phylogeny
#135 by sunshine1126 was closed Aug 11, 2023 updated Aug 11, 2023
2
analyse multiple samples from the same individual together to increase power
#129 by rosaranli was closed Jun 22, 2023 updated Jun 23, 2023
7
Co-genotype with bulk WGS and scRNA-seq
#106 by DrFengchenzhao was closed Apr 2, 2023 updated Jun 14, 2023
4
Error in mutate() while running numbat with snRNAseq data generated by Takara SMART-Seq Stranded Kit
#122 by xiaoxinchen2022 was closed Jun 10, 2023 updated Jun 10, 2023
3
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