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40 Open 55 Closed
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Issues list

16,299 variants identified from mouse mtDNA chromosome in scRNAseq?
#141 opened Oct 21, 2024 by jzussman
2
Do other species that adopt the 1a pattern need to specify chromosomes
#140 opened Oct 19, 2024 by qiqi277
1
Error: fail to write samples to cellSNP.samples.tsv
#136 opened Aug 26, 2024 by Wenjun-Liu
1
Try to use the reads rather than UMIs for counting SNPs in spatial transcriptome (10x Visium)
#133 opened Aug 2, 2024 by wJDKnight
5
How to detect all scaffolds (instead of chromosomes) in a bam file documentation Improvements or additions to documentation
#132 opened Jul 16, 2024 by BrunaLuz
1
Issue with cellsnp-lite Running in Single-Thread Mode documentation Improvements or additions to documentation
#131 opened Jul 12, 2024 by parv-sachdeva
1
HiC-pro mapping_combine.log: Failed to open file "XXX" : File exists
#130 opened Jul 9, 2024 by leventLiu
1
10X 5' single-cell data documentation Improvements or additions to documentation
#127 opened Jun 7, 2024 by HenriettaHolze
4
Generating Single VCF file for Each scRNA-Seq Sample
#125 opened May 30, 2024 by hkarakurt8742
3
Matching SNPs to cell barcode
#124 opened May 1, 2024 by malonzm1
Unable to install through anaconda documentation Improvements or additions to documentation
#120 opened Mar 20, 2024 by Angelos-Gk
8
Could not retrieve index file for .bam
#119 opened Mar 18, 2024 by nansne
3
Strand specificity
#118 opened Mar 7, 2024 by flde
1
Integrating mouse SNPs and scRNA-seq data for imprinted gene identification
#115 opened Jan 30, 2024 by singcell
Converting cellsnp-lite outputs to vartrix's consensus matrix documentation Improvements or additions to documentation
#114 opened Jan 12, 2024 by mdmanurung
1
Is there a good way to identify and add the gene names to the output vcfs?
#113 opened Dec 11, 2023 by pchatterjee7
1
Use cellSNP on a big BAM file enhancement New feature or request
#111 opened Nov 22, 2023 by RosaDeSa
1
cellsnp-lite on data from 1 donor
#106 opened Oct 17, 2023 by astaburuaga-garcia
2
the resulting file has only the title and no content
#102 opened Aug 30, 2023 by suhuanhou
6
scRNA-seq from different donors as a genotype-vcf input for vireo enhancement New feature or request
#100 opened Aug 14, 2023 by mariafiruleva
9
-ldeflate is missing in Makefile after I executed ./configure
#98 opened Jun 15, 2023 by darkcircle
postprocessing cellsnp outputs
#96 opened Jun 9, 2023 by maxozo
1
Error when using more than 2 bam files with mode 1B
#94 opened May 30, 2023 by cameronyoungpark
5
OTH ratio 1 good first issue Good for newcomers
#93 opened May 24, 2023 by flde
5
The 19 of 20 parallelized workers always strike far before the whole job is done enhancement New feature or request
#88 opened Mar 17, 2023 by mimi3421
3
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